Query 006491
Match_columns 643
No_of_seqs 475 out of 3459
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 00:02:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006491.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006491hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462 C2H2-type Zn-finger pr 99.9 1.4E-24 3.1E-29 218.8 5.5 135 40-196 127-266 (279)
2 KOG2462 C2H2-type Zn-finger pr 99.9 1.1E-23 2.4E-28 212.4 9.7 137 68-240 127-265 (279)
3 KOG1074 Transcriptional repres 99.8 6.7E-20 1.5E-24 205.5 6.0 73 124-196 610-691 (958)
4 KOG3608 Zn finger proteins [Ge 99.7 6.1E-18 1.3E-22 174.5 2.9 183 40-243 176-377 (467)
5 KOG3608 Zn finger proteins [Ge 99.7 4E-17 8.7E-22 168.5 3.4 149 42-198 206-377 (467)
6 KOG3576 Ovo and related transc 99.6 9.3E-17 2E-21 155.2 5.0 113 67-199 113-238 (267)
7 KOG1074 Transcriptional repres 99.6 1.1E-15 2.4E-20 172.0 3.7 60 36-95 598-657 (958)
8 KOG3576 Ovo and related transc 99.5 4.7E-15 1E-19 143.5 2.1 123 109-244 114-238 (267)
9 KOG3623 Homeobox transcription 99.4 4.7E-14 1E-18 156.5 1.8 108 71-196 210-332 (1007)
10 KOG3623 Homeobox transcription 99.4 8.2E-14 1.8E-18 154.6 3.0 106 112-241 210-332 (1007)
11 PLN03086 PRLI-interacting fact 99.1 1.8E-10 3.8E-15 129.5 6.8 131 41-198 405-565 (567)
12 PLN03086 PRLI-interacting fact 98.9 2.4E-09 5.1E-14 120.5 9.3 141 71-243 407-565 (567)
13 PHA00733 hypothetical protein 98.8 2.6E-09 5.6E-14 99.4 3.0 84 109-200 37-126 (128)
14 PHA00733 hypothetical protein 98.7 5.5E-09 1.2E-13 97.2 3.7 98 55-171 24-124 (128)
15 KOG3993 Transcription factor ( 98.6 7.1E-09 1.5E-13 110.4 1.1 152 42-200 266-485 (500)
16 KOG3993 Transcription factor ( 98.4 2.7E-07 5.9E-12 98.6 4.2 113 71-203 267-386 (500)
17 PHA02768 hypothetical protein; 98.3 1E-07 2.2E-12 75.2 0.1 43 113-164 6-48 (55)
18 PHA02768 hypothetical protein; 98.2 6E-07 1.3E-11 70.8 2.0 44 147-191 5-49 (55)
19 PF13465 zf-H2C2_2: Zinc-finge 98.1 1.6E-06 3.4E-11 58.4 1.5 26 134-159 1-26 (26)
20 COG5189 SFP1 Putative transcri 97.9 2.9E-06 6.2E-11 87.9 -0.1 50 145-194 347-419 (423)
21 COG5189 SFP1 Putative transcri 97.7 1.6E-05 3.6E-10 82.4 1.9 56 109-169 346-420 (423)
22 PHA00732 hypothetical protein 97.5 5.2E-05 1.1E-09 64.8 1.7 45 112-169 1-46 (79)
23 PHA00616 hypothetical protein 97.4 3.7E-05 8E-10 58.0 0.2 34 112-152 1-34 (44)
24 PF13465 zf-H2C2_2: Zinc-finge 97.3 7.2E-05 1.6E-09 50.3 0.4 24 162-185 1-26 (26)
25 PHA00732 hypothetical protein 97.2 0.00027 5.9E-09 60.4 2.9 45 147-196 1-47 (79)
26 PHA00616 hypothetical protein 97.1 0.00015 3.3E-09 54.7 0.8 32 147-178 1-33 (44)
27 KOG2231 Predicted E3 ubiquitin 97.0 0.00052 1.1E-08 78.9 4.1 110 73-198 117-237 (669)
28 PF05605 zf-Di19: Drought indu 96.9 0.00076 1.7E-08 53.3 2.7 47 148-197 3-53 (54)
29 PF05605 zf-Di19: Drought indu 96.8 0.0012 2.7E-08 52.1 3.2 52 71-143 2-53 (54)
30 PF00096 zf-C2H2: Zinc finger, 96.7 0.0009 2E-08 43.2 1.9 22 175-196 1-23 (23)
31 PF00096 zf-C2H2: Zinc finger, 96.7 0.00053 1.1E-08 44.3 0.7 23 72-94 1-23 (23)
32 COG5048 FOG: Zn-finger [Genera 96.5 0.0042 9E-08 66.9 5.9 140 42-186 288-458 (467)
33 COG5048 FOG: Zn-finger [Genera 96.5 0.0041 9E-08 66.9 5.8 149 70-254 288-453 (467)
34 PF12756 zf-C2H2_2: C2H2 type 96.4 0.0013 2.9E-08 57.1 1.0 22 73-94 1-22 (100)
35 PF13894 zf-C2H2_4: C2H2-type 96.2 0.0035 7.6E-08 40.1 2.3 23 175-197 1-24 (24)
36 PF13894 zf-C2H2_4: C2H2-type 96.1 0.0025 5.3E-08 40.9 1.1 24 72-95 1-24 (24)
37 PF13912 zf-C2H2_6: C2H2-type 95.9 0.0034 7.4E-08 42.1 1.1 25 71-95 1-25 (27)
38 PF12756 zf-C2H2_2: C2H2 type 95.9 0.0052 1.1E-07 53.4 2.5 72 114-196 1-73 (100)
39 PF13912 zf-C2H2_6: C2H2-type 95.9 0.0034 7.4E-08 42.1 1.0 24 174-197 1-25 (27)
40 COG5236 Uncharacterized conser 95.6 0.014 3E-07 61.8 4.6 133 72-243 152-306 (493)
41 KOG1146 Homeobox protein [Gene 95.1 0.02 4.3E-07 69.8 4.5 137 109-256 462-627 (1406)
42 KOG2231 Predicted E3 ubiquitin 94.7 0.026 5.6E-07 65.3 3.7 128 42-196 114-262 (669)
43 smart00355 ZnF_C2H2 zinc finge 94.6 0.027 6E-07 36.3 2.2 22 175-196 1-23 (26)
44 PF09237 GAGA: GAGA factor; I 94.4 0.014 3E-07 45.4 0.6 30 145-174 22-52 (54)
45 smart00355 ZnF_C2H2 zinc finge 94.4 0.02 4.3E-07 36.9 1.3 23 72-94 1-23 (26)
46 PRK04860 hypothetical protein; 94.2 0.025 5.5E-07 54.8 2.1 27 132-158 128-154 (160)
47 PRK04860 hypothetical protein; 93.2 0.029 6.2E-07 54.4 0.4 38 146-187 118-157 (160)
48 KOG1146 Homeobox protein [Gene 93.2 0.037 8.1E-07 67.5 1.4 19 177-195 1331-1350(1406)
49 PF12874 zf-met: Zinc-finger o 93.1 0.038 8.2E-07 36.2 0.8 23 72-94 1-23 (25)
50 KOG2482 Predicted C2H2-type Zn 92.7 0.15 3.3E-06 54.1 5.0 94 147-241 195-357 (423)
51 PF09237 GAGA: GAGA factor; I 92.5 0.1 2.2E-06 40.7 2.5 33 108-147 20-52 (54)
52 KOG4173 Alpha-SNAP protein [In 92.3 0.039 8.4E-07 54.7 -0.0 82 109-198 76-171 (253)
53 PF12171 zf-C2H2_jaz: Zinc-fin 91.8 0.1 2.2E-06 35.1 1.6 22 148-169 2-23 (27)
54 PF12171 zf-C2H2_jaz: Zinc-fin 91.6 0.075 1.6E-06 35.8 0.7 23 72-94 2-24 (27)
55 PF13909 zf-H2C2_5: C2H2-type 91.3 0.17 3.6E-06 32.9 2.2 22 175-197 1-23 (24)
56 KOG4124 Putative transcription 91.2 0.051 1.1E-06 57.7 -0.6 52 145-196 347-421 (442)
57 COG5236 Uncharacterized conser 90.4 0.2 4.4E-06 53.3 2.9 107 112-242 151-275 (493)
58 PF12874 zf-met: Zinc-finger o 90.3 0.1 2.2E-06 34.2 0.4 20 149-168 2-21 (25)
59 KOG2482 Predicted C2H2-type Zn 88.3 0.3 6.6E-06 52.0 2.4 49 148-196 280-357 (423)
60 KOG2893 Zn finger protein [Gen 88.3 0.18 3.9E-06 51.2 0.7 42 114-166 12-53 (341)
61 KOG1280 Uncharacterized conser 86.1 0.77 1.7E-05 49.2 3.9 31 145-175 77-108 (381)
62 KOG2785 C2H2-type Zn-finger pr 85.0 0.98 2.1E-05 49.0 4.1 49 146-194 165-241 (390)
63 PF13909 zf-H2C2_5: C2H2-type 84.1 0.68 1.5E-05 30.0 1.6 16 126-142 7-22 (24)
64 smart00451 ZnF_U1 U1-like zinc 83.9 0.57 1.2E-05 33.0 1.3 24 71-94 3-26 (35)
65 KOG2785 C2H2-type Zn-finger pr 83.2 0.97 2.1E-05 49.1 3.2 161 71-241 3-243 (390)
66 PF13913 zf-C2HC_2: zinc-finge 81.7 1.1 2.5E-05 29.8 1.9 20 176-196 4-24 (25)
67 KOG2893 Zn finger protein [Gen 80.3 0.77 1.7E-05 46.7 1.1 51 40-94 7-58 (341)
68 TIGR00622 ssl1 transcription f 80.2 2.8 6E-05 38.3 4.5 47 149-196 57-104 (112)
69 smart00451 ZnF_U1 U1-like zinc 79.9 0.87 1.9E-05 32.0 1.0 21 148-168 4-24 (35)
70 PF09986 DUF2225: Uncharacteri 76.3 1.1 2.4E-05 45.5 0.9 42 145-186 3-61 (214)
71 PF13913 zf-C2HC_2: zinc-finge 74.7 1.8 4E-05 28.8 1.3 21 72-93 3-23 (25)
72 KOG2186 Cell growth-regulating 74.0 1.6 3.4E-05 45.0 1.3 47 148-196 4-51 (276)
73 KOG4124 Putative transcription 73.6 1.1 2.3E-05 48.1 0.0 56 109-169 346-420 (442)
74 KOG2071 mRNA cleavage and poly 73.5 2.2 4.7E-05 49.0 2.4 35 68-103 415-449 (579)
75 TIGR00622 ssl1 transcription f 72.5 4.5 9.7E-05 37.0 3.7 78 145-241 13-104 (112)
76 PF09538 FYDLN_acid: Protein o 71.6 2.7 5.9E-05 38.2 2.1 36 38-84 4-39 (108)
77 KOG4173 Alpha-SNAP protein [In 69.8 1.1 2.4E-05 44.8 -0.9 77 70-169 78-168 (253)
78 COG5151 SSL1 RNA polymerase II 66.3 4.9 0.00011 42.6 3.0 47 149-196 364-411 (421)
79 PRK00464 nrdR transcriptional 65.9 2.6 5.6E-05 40.8 0.8 46 44-89 1-46 (154)
80 KOG4377 Zn-finger protein [Gen 65.7 15 0.00034 40.4 6.6 124 108-243 267-428 (480)
81 PF09986 DUF2225: Uncharacteri 65.4 2.8 6E-05 42.6 0.9 25 69-93 3-27 (214)
82 COG4049 Uncharacterized protei 64.8 3.5 7.6E-05 32.9 1.2 28 170-197 13-41 (65)
83 PRK00464 nrdR transcriptional 64.5 3.2 6.8E-05 40.2 1.1 16 148-163 29-44 (154)
84 KOG4407 Predicted Rho GTPase-a 63.5 2.4 5.1E-05 52.4 0.0 13 286-298 318-330 (1973)
85 COG4049 Uncharacterized protei 60.8 2.6 5.6E-05 33.6 -0.2 26 144-169 14-39 (65)
86 PF04216 FdhE: Protein involve 60.4 2 4.4E-05 45.5 -1.1 52 109-183 194-248 (290)
87 PRK03564 formate dehydrogenase 57.7 11 0.00024 40.5 3.8 51 109-184 209-263 (309)
88 TIGR02300 FYDLN_acid conserved 56.9 7.4 0.00016 36.3 2.0 39 39-88 5-43 (129)
89 PF12013 DUF3505: Protein of u 56.8 10 0.00022 34.1 3.0 25 174-198 80-109 (109)
90 cd00350 rubredoxin_like Rubred 56.3 7.7 0.00017 27.5 1.6 10 146-155 16-25 (33)
91 PF04959 ARS2: Arsenite-resist 55.2 2.9 6.2E-05 42.6 -1.0 33 170-202 73-106 (214)
92 PF09538 FYDLN_acid: Protein o 54.3 7.3 0.00016 35.5 1.6 15 146-160 25-39 (108)
93 COG1198 PriA Primosomal protei 49.0 8.6 0.00019 45.9 1.5 12 145-156 473-484 (730)
94 PF04959 ARS2: Arsenite-resist 46.4 15 0.00032 37.5 2.5 30 144-173 74-104 (214)
95 PF02166 Androgen_recep: Andro 45.3 7 0.00015 41.9 0.0 7 319-325 80-86 (423)
96 TIGR01562 FdhE formate dehydro 43.8 19 0.00041 38.7 3.0 50 109-183 207-262 (305)
97 smart00531 TFIIE Transcription 43.2 23 0.00049 33.8 3.1 14 147-160 99-112 (147)
98 PF02892 zf-BED: BED zinc fing 42.3 16 0.00034 27.2 1.5 26 68-93 13-42 (45)
99 TIGR02300 FYDLN_acid conserved 41.7 16 0.00035 34.1 1.8 12 147-158 26-37 (129)
100 TIGR02098 MJ0042_CXXC MJ0042 f 41.5 18 0.0004 26.0 1.7 11 149-159 4-14 (38)
101 KOG4377 Zn-finger protein [Gen 41.2 26 0.00057 38.7 3.5 121 70-199 270-429 (480)
102 COG1592 Rubrerythrin [Energy p 39.7 18 0.0004 35.4 1.9 25 111-155 133-157 (166)
103 COG5151 SSL1 RNA polymerase II 39.6 25 0.00054 37.5 2.9 57 36-94 355-411 (421)
104 PF12013 DUF3505: Protein of u 39.1 30 0.00064 31.0 3.1 24 148-171 81-109 (109)
105 PRK04023 DNA polymerase II lar 38.6 33 0.00071 42.2 4.1 14 67-80 622-635 (1121)
106 KOG2186 Cell growth-regulating 37.4 17 0.00037 37.7 1.4 49 72-143 4-52 (276)
107 PF13717 zinc_ribbon_4: zinc-r 36.8 25 0.00055 25.4 1.8 12 149-160 4-15 (36)
108 PHA00626 hypothetical protein 36.0 20 0.00044 28.8 1.2 16 69-84 21-36 (59)
109 COG1997 RPL43A Ribosomal prote 35.9 24 0.00053 30.8 1.8 12 173-184 52-64 (89)
110 KOG2807 RNA polymerase II tran 35.9 32 0.0007 37.0 3.1 24 173-196 344-368 (378)
111 PF10571 UPF0547: Uncharacteri 35.6 28 0.0006 23.5 1.7 25 44-82 1-25 (26)
112 PTZ00303 phosphatidylinositol 35.0 21 0.00046 42.3 1.8 13 72-84 461-473 (1374)
113 TIGR00373 conserved hypothetic 34.6 22 0.00047 34.4 1.5 34 108-157 105-138 (158)
114 PF05443 ROS_MUCR: ROS/MUCR tr 34.3 23 0.00051 33.4 1.6 27 176-205 74-101 (132)
115 PF13719 zinc_ribbon_5: zinc-r 34.1 28 0.0006 25.3 1.7 11 147-157 25-35 (37)
116 PRK06266 transcription initiat 33.6 23 0.00049 35.1 1.5 10 147-156 136-145 (178)
117 TIGR00373 conserved hypothetic 33.4 31 0.00068 33.3 2.4 34 144-185 106-140 (158)
118 COG4530 Uncharacterized protei 33.3 21 0.00046 32.4 1.1 12 146-157 25-36 (129)
119 PTZ00255 60S ribosomal protein 33.3 24 0.00051 31.1 1.4 31 146-185 35-66 (90)
120 PRK06266 transcription initiat 32.2 31 0.00068 34.1 2.2 34 145-186 115-149 (178)
121 PRK09678 DNA-binding transcrip 32.1 14 0.0003 31.2 -0.2 43 44-88 2-46 (72)
122 smart00614 ZnF_BED BED zinc fi 31.7 30 0.00065 26.6 1.6 22 175-196 19-47 (50)
123 PF15135 UPF0515: Uncharacteri 31.3 50 0.0011 34.3 3.5 77 83-186 91-168 (278)
124 PRK14873 primosome assembly pr 31.3 35 0.00076 40.6 2.8 9 73-81 385-393 (665)
125 TIGR00280 L37a ribosomal prote 31.3 25 0.00055 31.0 1.2 30 146-184 34-64 (91)
126 smart00531 TFIIE Transcription 31.2 30 0.00066 32.9 1.9 42 106-158 93-134 (147)
127 COG4530 Uncharacterized protei 31.0 30 0.00066 31.5 1.7 38 39-88 5-42 (129)
128 cd00729 rubredoxin_SM Rubredox 30.6 36 0.00077 24.4 1.7 10 146-155 17-26 (34)
129 KOG2593 Transcription initiati 30.5 41 0.00089 37.6 2.9 35 145-182 126-162 (436)
130 PRK09678 DNA-binding transcrip 30.1 23 0.0005 29.9 0.8 15 171-185 24-41 (72)
131 KOG4167 Predicted DNA-binding 29.8 12 0.00025 44.1 -1.4 25 71-95 792-816 (907)
132 PTZ00303 phosphatidylinositol 29.7 42 0.00092 40.0 3.0 46 34-86 450-496 (1374)
133 smart00440 ZnF_C2C2 C2C2 Zinc 29.7 28 0.0006 25.8 1.0 12 173-184 27-39 (40)
134 COG1592 Rubrerythrin [Energy p 29.3 28 0.00061 34.1 1.3 23 147-181 134-157 (166)
135 COG1198 PriA Primosomal protei 29.2 27 0.00058 41.9 1.3 27 142-182 457-484 (730)
136 PF02176 zf-TRAF: TRAF-type zi 28.8 37 0.00079 26.7 1.7 28 132-159 23-54 (60)
137 PF14353 CpXC: CpXC protein 28.7 8.4 0.00018 35.6 -2.3 51 44-94 2-61 (128)
138 PF01780 Ribosomal_L37ae: Ribo 28.5 23 0.00051 31.2 0.5 30 146-184 34-64 (90)
139 PF02176 zf-TRAF: TRAF-type zi 28.0 32 0.00069 27.1 1.2 46 145-192 7-60 (60)
140 PRK04023 DNA polymerase II lar 27.8 97 0.0021 38.3 5.6 10 174-183 663-673 (1121)
141 PRK03976 rpl37ae 50S ribosomal 27.0 32 0.00069 30.3 1.1 31 146-185 35-66 (90)
142 PF01096 TFIIS_C: Transcriptio 26.8 16 0.00034 27.0 -0.7 11 173-183 27-38 (39)
143 TIGR02605 CxxC_CxxC_SSSS putat 26.5 26 0.00056 27.0 0.4 30 112-155 5-34 (52)
144 COG0068 HypF Hydrogenase matur 26.5 8.9 0.00019 45.2 -3.1 82 40-154 98-180 (750)
145 TIGR00595 priA primosomal prot 25.7 51 0.0011 37.9 2.8 45 46-154 216-260 (505)
146 COG1107 Archaea-specific RecJ- 25.5 65 0.0014 37.5 3.4 14 451-464 517-530 (715)
147 TIGR00244 transcriptional regu 25.3 35 0.00077 32.7 1.2 45 45-89 2-46 (147)
148 KOG2461 Transcription factor B 25.2 1.2E+02 0.0027 33.8 5.5 21 72-92 332-352 (396)
149 COG1571 Predicted DNA-binding 24.7 39 0.00084 37.8 1.5 30 148-187 351-381 (421)
150 smart00834 CxxC_CXXC_SSSS Puta 24.1 32 0.00069 24.9 0.5 10 146-155 25-34 (41)
151 COG1996 RPC10 DNA-directed RNA 24.0 39 0.00084 26.5 1.0 10 147-156 24-33 (49)
152 KOG2071 mRNA cleavage and poly 23.8 68 0.0015 37.2 3.2 25 145-169 416-440 (579)
153 PF11494 Ta0938: Ta0938; Inte 23.3 51 0.0011 29.4 1.6 38 144-186 11-50 (105)
154 COG2888 Predicted Zn-ribbon RN 23.2 56 0.0012 26.6 1.7 8 173-180 49-57 (61)
155 COG3091 SprT Zn-dependent meta 23.2 44 0.00095 32.3 1.4 32 146-182 116-149 (156)
156 KOG1701 Focal adhesion adaptor 23.1 14 0.00031 40.9 -2.1 14 215-229 425-438 (468)
157 COG3677 Transposase and inacti 23.0 45 0.00098 31.2 1.4 38 43-85 30-67 (129)
158 KOG0320 Predicted E3 ubiquitin 22.8 61 0.0013 32.1 2.3 14 107-120 126-139 (187)
159 PF15269 zf-C2H2_7: Zinc-finge 22.5 60 0.0013 25.0 1.7 23 174-196 20-43 (54)
160 PF09788 Tmemb_55A: Transmembr 22.5 3.5E+02 0.0077 28.4 7.8 41 146-193 156-197 (256)
161 KOG3362 Predicted BBOX Zn-fing 21.9 51 0.0011 31.5 1.5 38 40-94 115-152 (156)
162 COG1327 Predicted transcriptio 21.9 46 0.001 32.1 1.2 44 45-88 2-45 (156)
163 PF06524 NOA36: NOA36 protein; 21.5 37 0.0008 35.5 0.5 79 109-196 139-232 (314)
164 PF12760 Zn_Tnp_IS1595: Transp 21.4 1.5E+02 0.0032 22.4 3.7 26 148-181 19-45 (46)
165 PRK00398 rpoP DNA-directed RNA 21.1 39 0.00085 25.5 0.5 12 147-158 21-32 (46)
166 PF10263 SprT-like: SprT-like 21.0 36 0.00078 32.2 0.3 31 147-184 123-154 (157)
167 PRK14873 primosome assembly pr 21.0 50 0.0011 39.3 1.6 25 143-182 406-431 (665)
168 PF01363 FYVE: FYVE zinc finge 20.5 34 0.00073 27.9 0.0 36 37-84 3-38 (69)
169 PF15269 zf-C2H2_7: Zinc-finge 20.3 1.3E+02 0.0028 23.2 3.0 23 72-94 21-43 (54)
170 smart00731 SprT SprT homologue 20.2 57 0.0012 30.9 1.5 32 147-184 112-144 (146)
171 KOG3002 Zn finger protein [Gen 20.1 1.2E+02 0.0026 32.6 4.1 79 110-198 78-164 (299)
No 1
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.90 E-value=1.4e-24 Score=218.79 Aligned_cols=135 Identities=22% Similarity=0.411 Sum_probs=126.3
Q ss_pred CCCCCCCCCCCCCCCChhhhhcCccccCC---CCccccCcccccccCchhHHhHhhhcCCCccccccccccccCceeeCC
Q 006491 40 PPQKKKRNQPGTPNPDAEVIALSPKTLMA---TNRFICEVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCP 116 (643)
Q Consensus 40 ~p~~~~c~~cg~~~~~~~~l~~h~k~h~~---~kpy~C~~CgK~F~~~~~L~~H~r~H~~~~~~~~~~~~~~~~k~y~C~ 116 (643)
...+++|.+|++.+.....|.+|+.+|.. .+.+.|++|+|.|.+...|+.|+|+|+ -+++|.
T Consensus 127 ~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~---------------l~c~C~ 191 (279)
T KOG2462|consen 127 KHPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT---------------LPCECG 191 (279)
T ss_pred cCCceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC---------------CCcccc
Confidence 55678999999999999999999999865 678999999999999999999999994 578898
Q ss_pred CCCccCCCCCCcccChhhHHhHhhhccCCcccccccccccccchhhhhhcccc-cCCceeecC-CCCCcCChHHHHHHHH
Q 006491 117 EPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAHSKT-CGTREYRCD-CGTLFSRRDSFITHRA 194 (643)
Q Consensus 117 ~C~C~~~~~~k~F~~~s~L~~H~r~H~geKpfkC~~CgKsF~~ks~L~~H~rt-hgeKpy~C~-CgK~F~~ks~L~~H~~ 194 (643)
+| +|.|.....|+-|+|+|+|||||.|..|+|.|..+++|+.||++ .+.|+|.|. |+|.|.+++.|.+|..
T Consensus 192 iC-------GKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~E 264 (279)
T KOG2462|consen 192 IC-------GKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSE 264 (279)
T ss_pred cc-------cccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhh
Confidence 88 99999999999999999999999999999999999999999999 688999999 9999999999999987
Q ss_pred Hh
Q 006491 195 FC 196 (643)
Q Consensus 195 ~H 196 (643)
..
T Consensus 265 S~ 266 (279)
T KOG2462|consen 265 SA 266 (279)
T ss_pred hc
Confidence 54
No 2
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.89 E-value=1.1e-23 Score=212.38 Aligned_cols=137 Identities=18% Similarity=0.360 Sum_probs=127.2
Q ss_pred CCCccccCcccccccCchhHHhHhhhcCCCccccccccccccCceeeCCCCCccCCCCCCcccChhhHHhHhhhccCCcc
Q 006491 68 ATNRFICEVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKK 147 (643)
Q Consensus 68 ~~kpy~C~~CgK~F~~~~~L~~H~r~H~~~~~~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~geKp 147 (643)
...+|+|++|+|.|.+..+|.+|+..|. .-...+.+.|++| +|+|.....|+.|+|+|+ -+
T Consensus 127 ~~~r~~c~eCgk~ysT~snLsrHkQ~H~----------~~~s~ka~~C~~C-------~K~YvSmpALkMHirTH~--l~ 187 (279)
T KOG2462|consen 127 KHPRYKCPECGKSYSTSSNLSRHKQTHR----------SLDSKKAFSCKYC-------GKVYVSMPALKMHIRTHT--LP 187 (279)
T ss_pred cCCceeccccccccccccccchhhcccc----------cccccccccCCCC-------CceeeehHHHhhHhhccC--CC
Confidence 4567999999999999999999999994 1224788999999 999999999999999997 68
Q ss_pred cccccccccccchhhhhhcccc-cCCceeecC-CCCCcCChHHHHHHHHHhhhhhhhhhhcCCCccccCCCCccCCcccc
Q 006491 148 WKCEKCSKRYAVQSDWKAHSKT-CGTREYRCD-CGTLFSRRDSFITHRAFCDALAQESARHQPSLSAIGSHLYASTNNMA 225 (643)
Q Consensus 148 fkC~~CgKsF~~ks~L~~H~rt-hgeKpy~C~-CgK~F~~ks~L~~H~~~Hh~~~~~~~~~~~~~~~~~~k~y~C~~~C~ 225 (643)
++|.+|||.|.+.+-|+.|+|+ +|||||.|. |+|.|..+++|+.|+++| .+.|.|.|.. |.
T Consensus 188 c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTH----------------S~~K~~qC~~-C~ 250 (279)
T KOG2462|consen 188 CECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTH----------------SDVKKHQCPR-CG 250 (279)
T ss_pred cccccccccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhh----------------cCCccccCcc-hh
Confidence 9999999999999999999999 999999999 999999999999999999 7889999999 99
Q ss_pred ccccccchhhhhhhh
Q 006491 226 LGLSQVGPQLSSIKD 240 (643)
Q Consensus 226 ~~fs~~s~L~~H~k~ 240 (643)
|.|+..+-|.+|...
T Consensus 251 KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 251 KSFALKSYLNKHSES 265 (279)
T ss_pred hHHHHHHHHHHhhhh
Confidence 999999999999754
No 3
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.79 E-value=6.7e-20 Score=205.52 Aligned_cols=73 Identities=22% Similarity=0.503 Sum_probs=63.3
Q ss_pred CCCCcccChhhHHhHhhhccCCcccccccccccccchhhhhhcccccCCce-----eecC----CCCCcCChHHHHHHHH
Q 006491 124 DPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAHSKTCGTRE-----YRCD----CGTLFSRRDSFITHRA 194 (643)
Q Consensus 124 ~~~k~F~~~s~L~~H~r~H~geKpfkC~~CgKsF~~ks~L~~H~rthgeKp-----y~C~----CgK~F~~ks~L~~H~~ 194 (643)
.|.|+....+.|+.|+|+|++||||||.+|++.|.++-+|+.||.+|+.|| |.|. |-+.|.....|..|++
T Consensus 610 iC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~V~lpQhIr 689 (958)
T KOG1074|consen 610 ICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNAVTLPQHIR 689 (958)
T ss_pred eeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhcccccccccccceEE
Confidence 349999999999999999999999999999999999999999999876654 6664 7778877777777776
Q ss_pred Hh
Q 006491 195 FC 196 (643)
Q Consensus 195 ~H 196 (643)
+|
T Consensus 690 iH 691 (958)
T KOG1074|consen 690 IH 691 (958)
T ss_pred ee
Confidence 65
No 4
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.69 E-value=6.1e-18 Score=174.51 Aligned_cols=183 Identities=16% Similarity=0.227 Sum_probs=107.2
Q ss_pred CCCCCCCCCCCCCCCChhhhhcCccccCCCCccccCcccccccCchhHHhHhhhcC----CCccccccccc---------
Q 006491 40 PPQKKKRNQPGTPNPDAEVIALSPKTLMATNRFICEVCNKGFQREQNLQLHRRGHN----LPWKLKQKTTK--------- 106 (643)
Q Consensus 40 ~p~~~~c~~cg~~~~~~~~l~~h~k~h~~~kpy~C~~CgK~F~~~~~L~~H~r~H~----~~~~~~~~~~~--------- 106 (643)
+........|-+.+.++..|..|.+.|+++|...|+.|+.-|.++..|..|+|..+ .++.|..+.+.
T Consensus 176 pv~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~ 255 (467)
T KOG3608|consen 176 PVTMCNWAMCTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKS 255 (467)
T ss_pred ceeeccchhhhhhhccHHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHH
Confidence 34445567788999999999999999999999999999999999999999988764 11222211111
Q ss_pred cc--cCceeeCCCCCccCCCCCCcccChhhHHhHhhh-ccCCcccccccccccccchhhhhhcccccCCceeecC---CC
Q 006491 107 EV--KRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSR-KHGEKKWKCEKCSKRYAVQSDWKAHSKTCGTREYRCD---CG 180 (643)
Q Consensus 107 ~~--~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~-H~geKpfkC~~CgKsF~~ks~L~~H~rthgeKpy~C~---Cg 180 (643)
|. ....|+|+.| .......+.|.+|++. |..+|||||+.|++.|.+.++|.+|..+|.+-.|.|+ |.
T Consensus 256 Hv~rHvn~ykCplC-------dmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS~~~y~C~h~~C~ 328 (467)
T KOG3608|consen 256 HVVRHVNCYKCPLC-------DMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHSKTVYQCEHPDCH 328 (467)
T ss_pred HHHHhhhccccccc-------ccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhccccceecCCCCCc
Confidence 00 1123445444 4444444555555442 4444555555555555555555555544444445553 55
Q ss_pred CCcCChHHHHHHHHHhhhhhhhhhhcCCCccccCCCCccCCccccccccccchhhhhhhhccC
Q 006491 181 TLFSRRDSFITHRAFCDALAQESARHQPSLSAIGSHLYASTNNMALGLSQVGPQLSSIKDHHQ 243 (643)
Q Consensus 181 K~F~~ks~L~~H~~~Hh~~~~~~~~~~~~~~~~~~k~y~C~~~C~~~fs~~s~L~~H~k~hh~ 243 (643)
..|+.+..+++|++-+|.- ....+|+|-. |++.|..--+|-.|+++.|.
T Consensus 329 ~s~r~~~q~~~H~~evhEg-------------~np~~Y~CH~-Cdr~ft~G~~L~~HL~kkH~ 377 (467)
T KOG3608|consen 329 YSVRTYTQMRRHFLEVHEG-------------NNPILYACHC-CDRFFTSGKSLSAHLMKKHG 377 (467)
T ss_pred HHHHHHHHHHHHHHHhccC-------------CCCCceeeec-chhhhccchhHHHHHHHhhc
Confidence 5555555555554444310 2233556655 66666655556566555544
No 5
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.65 E-value=4e-17 Score=168.54 Aligned_cols=149 Identities=19% Similarity=0.267 Sum_probs=127.9
Q ss_pred CCCCCCCCCCCCCChhhhhcCcccc--CCCCccccCcccccccCchhHHhHhhhcCCCcccccc--------------cc
Q 006491 42 QKKKRNQPGTPNPDAEVIALSPKTL--MATNRFICEVCNKGFQREQNLQLHRRGHNLPWKLKQK--------------TT 105 (643)
Q Consensus 42 ~~~~c~~cg~~~~~~~~l~~h~k~h--~~~kpy~C~~CgK~F~~~~~L~~H~r~H~~~~~~~~~--------------~~ 105 (643)
+...|..|+.-|..+..|-.|.+.. ....+|.|..|.|.|.++..|+.|++.|-..++|..+ ..
T Consensus 206 KvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~ykCplCdmtc~~~ssL~~H~r~ 285 (467)
T KOG3608|consen 206 KVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNCYKCPLCDMTCSSASSLTTHIRY 285 (467)
T ss_pred eEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhcccccccccCCCChHHHHHHHHh
Confidence 3457999999999999999887654 4567999999999999999999999999755554332 23
Q ss_pred ccccCceeeCCCCCccCCCCCCcccChhhHHhHhhhccCCccccccc--ccccccchhhhhhcccc-c---CCceeecC-
Q 006491 106 KEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEK--CSKRYAVQSDWKAHSKT-C---GTREYRCD- 178 (643)
Q Consensus 106 ~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~geKpfkC~~--CgKsF~~ks~L~~H~rt-h---geKpy~C~- 178 (643)
+|.+.|+|+|++| .+.|...+.|.+|..+|. +.-|.|+. |...|.....+++|++. | .+-+|.|.
T Consensus 286 rHs~dkpfKCd~C-------d~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~ 357 (467)
T KOG3608|consen 286 RHSKDKPFKCDEC-------DTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHC 357 (467)
T ss_pred hhccCCCccccch-------hhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeec
Confidence 5678999999999 999999999999999998 77899988 99999999999999998 4 34679999
Q ss_pred CCCCcCChHHHHHHHHHhhh
Q 006491 179 CGTLFSRRDSFITHRAFCDA 198 (643)
Q Consensus 179 CgK~F~~ks~L~~H~~~Hh~ 198 (643)
|.+.|++-.+|.+|++..|.
T Consensus 358 Cdr~ft~G~~L~~HL~kkH~ 377 (467)
T KOG3608|consen 358 CDRFFTSGKSLSAHLMKKHG 377 (467)
T ss_pred chhhhccchhHHHHHHHhhc
Confidence 99999999999999876654
No 6
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.65 E-value=9.3e-17 Score=155.25 Aligned_cols=113 Identities=26% Similarity=0.553 Sum_probs=104.1
Q ss_pred CCCCccccCcccccccCchhHHhHhhhcCCCccccccccccccCceeeCCCCCccCCCCCCcccChhhHHhHhhhccCCc
Q 006491 67 MATNRFICEVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEK 146 (643)
Q Consensus 67 ~~~kpy~C~~CgK~F~~~~~L~~H~r~H~~~~~~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~geK 146 (643)
.+...|.|.+|+|.|.....|.+|++.|. ..|.|.|..| +|.|.+.-.|++|+|+|++.+
T Consensus 113 sd~d~ftCrvCgK~F~lQRmlnrh~kch~-------------~vkr~lct~c-------gkgfndtfdlkrh~rthtgvr 172 (267)
T KOG3576|consen 113 SDQDSFTCRVCGKKFGLQRMLNRHLKCHS-------------DVKRHLCTFC-------GKGFNDTFDLKRHTRTHTGVR 172 (267)
T ss_pred CCCCeeeeehhhhhhhHHHHHHHHhhhcc-------------HHHHHHHhhc-------cCcccchhhhhhhhccccCcc
Confidence 34567999999999999999999999995 7789999998 999999999999999999999
Q ss_pred ccccccccccccchhhhhhcccc-cC-----------CceeecC-CCCCcCChHHHHHHHHHhhhh
Q 006491 147 KWKCEKCSKRYAVQSDWKAHSKT-CG-----------TREYRCD-CGTLFSRRDSFITHRAFCDAL 199 (643)
Q Consensus 147 pfkC~~CgKsF~~ks~L~~H~rt-hg-----------eKpy~C~-CgK~F~~ks~L~~H~~~Hh~~ 199 (643)
||+|..|+|.|...-.|..|.+. |+ +|.|+|+ ||.+-.+...+..|++.||..
T Consensus 173 pykc~~c~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~ 238 (267)
T KOG3576|consen 173 PYKCSLCEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPF 238 (267)
T ss_pred ccchhhhhHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCC
Confidence 99999999999999999999887 74 5789999 999999999999999999753
No 7
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.56 E-value=1.1e-15 Score=172.04 Aligned_cols=60 Identities=15% Similarity=0.226 Sum_probs=55.1
Q ss_pred CCCCCCCCCCCCCCCCCCCChhhhhcCccccCCCCccccCcccccccCchhHHhHhhhcC
Q 006491 36 PPVPPPQKKKRNQPGTPNPDAEVIALSPKTLMATNRFICEVCNKGFQREQNLQLHRRGHN 95 (643)
Q Consensus 36 ~~~~~p~~~~c~~cg~~~~~~~~l~~h~k~h~~~kpy~C~~CgK~F~~~~~L~~H~r~H~ 95 (643)
...+...+-.|-+|-+.......|..|.++|++|+||+|++|++.|.++.+|+.|+-+|.
T Consensus 598 ~~~~~TdPNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHk 657 (958)
T KOG1074|consen 598 SENKRTDPNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHK 657 (958)
T ss_pred cccccCCccceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccc
Confidence 344556678899999999999999999999999999999999999999999999999985
No 8
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.50 E-value=4.7e-15 Score=143.54 Aligned_cols=123 Identities=21% Similarity=0.387 Sum_probs=110.1
Q ss_pred cCceeeCCCCCccCCCCCCcccChhhHHhHhhhccCCcccccccccccccchhhhhhcccc-cCCceeecC-CCCCcCCh
Q 006491 109 KRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAHSKT-CGTREYRCD-CGTLFSRR 186 (643)
Q Consensus 109 ~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~geKpfkC~~CgKsF~~ks~L~~H~rt-hgeKpy~C~-CgK~F~~k 186 (643)
....|.|.+| +|.|.....|.+|++.|...|.|-|..|+|.|...-+|++|+|+ +|.+||+|. |+|.|.++
T Consensus 114 d~d~ftCrvC-------gK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqr 186 (267)
T KOG3576|consen 114 DQDSFTCRVC-------GKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQR 186 (267)
T ss_pred CCCeeeeehh-------hhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhh
Confidence 4678999999 99999999999999999999999999999999999999999999 899999999 99999999
Q ss_pred HHHHHHHHHhhhhhhhhhhcCCCccccCCCCccCCccccccccccchhhhhhhhccCC
Q 006491 187 DSFITHRAFCDALAQESARHQPSLSAIGSHLYASTNNMALGLSQVGPQLSSIKDHHQT 244 (643)
Q Consensus 187 s~L~~H~~~Hh~~~~~~~~~~~~~~~~~~k~y~C~~~C~~~fs~~s~L~~H~k~hh~~ 244 (643)
..|..|.+.-|.+....+... ...|+|.|.+ |+.+-.....+..|++.||..
T Consensus 187 csleshl~kvhgv~~~yayke-----rr~kl~vced-cg~t~~~~e~~~~h~~~~hp~ 238 (267)
T KOG3576|consen 187 CSLESHLKKVHGVQHQYAYKE-----RRAKLYVCED-CGYTSERPEVYYLHLKLHHPF 238 (267)
T ss_pred ccHHHHHHHHcCchHHHHHHH-----hhhheeeecc-cCCCCCChhHHHHHHHhcCCC
Confidence 999999987776655444332 3578999999 999999999999999998654
No 9
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.41 E-value=4.7e-14 Score=156.52 Aligned_cols=108 Identities=23% Similarity=0.516 Sum_probs=96.3
Q ss_pred ccccCcccccccCchhHHhHhhhcCCCccccccccccccCceeeCCCCCccCCCCCCcccChhhHHhHhhhccC------
Q 006491 71 RFICEVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHG------ 144 (643)
Q Consensus 71 py~C~~CgK~F~~~~~L~~H~r~H~~~~~~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~g------ 144 (643)
...|++|.+.|++...|+.|++..+ ...+..|.|..| ...|.+.+.|.+|+.+|..
T Consensus 210 lltcpycdrgykrltslkeHikyrh-----------ekne~nfsC~lC-------sytFAyRtQLErhm~~hkpg~dqa~ 271 (1007)
T KOG3623|consen 210 LLTCPYCDRGYKRLTSLKEHIKYRH-----------EKNEPNFSCMLC-------SYTFAYRTQLERHMQLHKPGGDQAI 271 (1007)
T ss_pred hhcchhHHHHHHHHHHHHHHHHHHH-----------hhCCCCCcchhh-------hhhhhhHHHHHHHHHhhcCCCcccc
Confidence 4689999999999999999987653 135677889998 8999999999999999862
Q ss_pred -------Ccccccccccccccchhhhhhcccc-cCCceeecC-CCCCcCChHHHHHHHHHh
Q 006491 145 -------EKKWKCEKCSKRYAVQSDWKAHSKT-CGTREYRCD-CGTLFSRRDSFITHRAFC 196 (643)
Q Consensus 145 -------eKpfkC~~CgKsF~~ks~L~~H~rt-hgeKpy~C~-CgK~F~~ks~L~~H~~~H 196 (643)
.++|||.+|+|.|+.+..|+.|+|+ .|||||.|+ |+|+|.....+..|+...
T Consensus 272 sltqsa~lRKFKCtECgKAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmSSK 332 (1007)
T KOG3623|consen 272 SLTQSALLRKFKCTECGKAFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMSSK 332 (1007)
T ss_pred cccchhhhccccccccchhhhhHHHHHhhheeecCCCCcCCcccccccccCCccccccccc
Confidence 4789999999999999999999999 799999999 999999999999998543
No 10
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.40 E-value=8.2e-14 Score=154.61 Aligned_cols=106 Identities=24% Similarity=0.476 Sum_probs=95.4
Q ss_pred eeeCCCCCccCCCCCCcccChhhHHhHhhhccC--Ccccccccccccccchhhhhhccccc--------------CCcee
Q 006491 112 VYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHG--EKKWKCEKCSKRYAVQSDWKAHSKTC--------------GTREY 175 (643)
Q Consensus 112 ~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~g--eKpfkC~~CgKsF~~ks~L~~H~rth--------------geKpy 175 (643)
...|++| .+.|...+.|++|++.-+. +..|.|..|.++|..+..|.+||.+| ..|.|
T Consensus 210 lltcpyc-------drgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKF 282 (1007)
T KOG3623|consen 210 LLTCPYC-------DRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKF 282 (1007)
T ss_pred hhcchhH-------HHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccc
Confidence 4689998 9999999999999986443 56799999999999999999999874 24779
Q ss_pred ecC-CCCCcCChHHHHHHHHHhhhhhhhhhhcCCCccccCCCCccCCccccccccccchhhhhhhhc
Q 006491 176 RCD-CGTLFSRRDSFITHRAFCDALAQESARHQPSLSAIGSHLYASTNNMALGLSQVGPQLSSIKDH 241 (643)
Q Consensus 176 ~C~-CgK~F~~ks~L~~H~~~Hh~~~~~~~~~~~~~~~~~~k~y~C~~~C~~~fs~~s~L~~H~k~h 241 (643)
+|. |+|.|+.+.+|+.|+||| .|+|||.|+. |.|+|+..+++-.||...
T Consensus 283 KCtECgKAFKfKHHLKEHlRIH----------------SGEKPfeCpn-CkKRFSHSGSySSHmSSK 332 (1007)
T KOG3623|consen 283 KCTECGKAFKFKHHLKEHLRIH----------------SGEKPFECPN-CKKRFSHSGSYSSHMSSK 332 (1007)
T ss_pred cccccchhhhhHHHHHhhheee----------------cCCCCcCCcc-cccccccCCccccccccc
Confidence 998 999999999999999999 8999999999 999999999999998554
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.06 E-value=1.8e-10 Score=129.48 Aligned_cols=131 Identities=19% Similarity=0.345 Sum_probs=100.6
Q ss_pred CCCCCCCCCCCCCCChhhhhcCcccc-------------------CCCCccccCcccccccCchhHHhHhhhcCCCcccc
Q 006491 41 PQKKKRNQPGTPNPDAEVIALSPKTL-------------------MATNRFICEVCNKGFQREQNLQLHRRGHNLPWKLK 101 (643)
Q Consensus 41 p~~~~c~~cg~~~~~~~~l~~h~k~h-------------------~~~kpy~C~~CgK~F~~~~~L~~H~r~H~~~~~~~ 101 (643)
+....|.-|....+..... .|.... ..++.+.|+.|++.|. ...|..|++.|+
T Consensus 405 ~~~V~C~NC~~~i~l~~l~-lHe~~C~r~~V~Cp~~~Cg~v~~r~el~~H~~C~~Cgk~f~-~s~LekH~~~~H------ 476 (567)
T PLN03086 405 VDTVECRNCKHYIPSRSIA-LHEAYCSRHNVVCPHDGCGIVLRVEEAKNHVHCEKCGQAFQ-QGEMEKHMKVFH------ 476 (567)
T ss_pred CCeEECCCCCCccchhHHH-HHHhhCCCcceeCCcccccceeeccccccCccCCCCCCccc-hHHHHHHHHhcC------
Confidence 4445677777766554332 443222 1245678999999995 678999998873
Q ss_pred ccccccccCceeeCCCCCccCCCCCCcccChhhHHhHhhhccCCccccccccccccc----------chhhhhhcccccC
Q 006491 102 QKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYA----------VQSDWKAHSKTCG 171 (643)
Q Consensus 102 ~~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~geKpfkC~~CgKsF~----------~ks~L~~H~rthg 171 (643)
++|.|+ | ++.+ .+..|..|+++|..+|++.|.+|++.|. ....|..|+.+++
T Consensus 477 ---------kpv~Cp-C-------g~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~CG 538 (567)
T PLN03086 477 ---------EPLQCP-C-------GVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESICG 538 (567)
T ss_pred ---------CCccCC-C-------CCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhcC
Confidence 689998 7 7655 6689999999999999999999999995 2458999999999
Q ss_pred CceeecC-CCCCcCChHHHHHHHHHhhh
Q 006491 172 TREYRCD-CGTLFSRRDSFITHRAFCDA 198 (643)
Q Consensus 172 eKpy~C~-CgK~F~~ks~L~~H~~~Hh~ 198 (643)
.+++.|. |++.|..+ .|..|+..+|.
T Consensus 539 ~rt~~C~~Cgk~Vrlr-dm~~H~~~~h~ 565 (567)
T PLN03086 539 SRTAPCDSCGRSVMLK-EMDIHQIAVHQ 565 (567)
T ss_pred CcceEccccCCeeeeh-hHHHHHHHhhc
Confidence 9999999 99999765 68888876653
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.93 E-value=2.4e-09 Score=120.51 Aligned_cols=141 Identities=18% Similarity=0.285 Sum_probs=101.2
Q ss_pred ccccCcccccccCchhHHhHhhhcCCCc-c-----ccccccccccCceeeCCCCCccCCCCCCcccChhhHHhHhhhccC
Q 006491 71 RFICEVCNKGFQREQNLQLHRRGHNLPW-K-----LKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHG 144 (643)
Q Consensus 71 py~C~~CgK~F~~~~~L~~H~r~H~~~~-~-----~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~g 144 (643)
.-.|+.|.+.. ...+|..|........ . |.........++.+.|+.| ++.|. ...|++|+++|+
T Consensus 407 ~V~C~NC~~~i-~l~~l~lHe~~C~r~~V~Cp~~~Cg~v~~r~el~~H~~C~~C-------gk~f~-~s~LekH~~~~H- 476 (567)
T PLN03086 407 TVECRNCKHYI-PSRSIALHEAYCSRHNVVCPHDGCGIVLRVEEAKNHVHCEKC-------GQAFQ-QGEMEKHMKVFH- 476 (567)
T ss_pred eEECCCCCCcc-chhHHHHHHhhCCCcceeCCcccccceeeccccccCccCCCC-------CCccc-hHHHHHHHHhcC-
Confidence 35799998865 4577888986553211 1 2222233344567788887 88885 577899999885
Q ss_pred Ccccccccccccccchhhhhhcccc-cCCceeecC-CCCCcC----------ChHHHHHHHHHhhhhhhhhhhcCCCccc
Q 006491 145 EKKWKCEKCSKRYAVQSDWKAHSKT-CGTREYRCD-CGTLFS----------RRDSFITHRAFCDALAQESARHQPSLSA 212 (643)
Q Consensus 145 eKpfkC~~CgKsF~~ks~L~~H~rt-hgeKpy~C~-CgK~F~----------~ks~L~~H~~~Hh~~~~~~~~~~~~~~~ 212 (643)
++|.|+ |++.+ .+..|..|+++ +.+|++.|. |++.|. +...|..|+..|
T Consensus 477 -kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C---------------- 537 (567)
T PLN03086 477 -EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC---------------- 537 (567)
T ss_pred -CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhc----------------
Confidence 789999 99765 56889999888 888999999 999985 245788888766
Q ss_pred cCCCCccCCccccccccccchhhhhhhhccC
Q 006491 213 IGSHLYASTNNMALGLSQVGPQLSSIKDHHQ 243 (643)
Q Consensus 213 ~~~k~y~C~~~C~~~fs~~s~L~~H~k~hh~ 243 (643)
+.+++.|.. |++.+... .+..|+...|.
T Consensus 538 -G~rt~~C~~-Cgk~Vrlr-dm~~H~~~~h~ 565 (567)
T PLN03086 538 -GSRTAPCDS-CGRSVMLK-EMDIHQIAVHQ 565 (567)
T ss_pred -CCcceEccc-cCCeeeeh-hHHHHHHHhhc
Confidence 778899977 98777654 55667655543
No 13
>PHA00733 hypothetical protein
Probab=98.79 E-value=2.6e-09 Score=99.40 Aligned_cols=84 Identities=14% Similarity=0.256 Sum_probs=69.1
Q ss_pred cCceeeCCCCCccCCCCCCcccChhhHHhH--h---hhccCCcccccccccccccchhhhhhcccccCCceeecC-CCCC
Q 006491 109 KRKVYLCPEPTCVHHDPSRALGDLTGIKKH--Y---SRKHGEKKWKCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CGTL 182 (643)
Q Consensus 109 ~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H--~---r~H~geKpfkC~~CgKsF~~ks~L~~H~rthgeKpy~C~-CgK~ 182 (643)
..+++.|.+| .+.|.....|..| + ..++.++||.|+.|++.|.....|..|++.+ +++|.|. |++.
T Consensus 37 ~~~~~~~~~~-------~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h-~~~~~C~~CgK~ 108 (128)
T PHA00733 37 EQKRLIRAVV-------KTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT-EHSKVCPVCGKE 108 (128)
T ss_pred hhhhHHHHHH-------hhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC-CcCccCCCCCCc
Confidence 4688999998 6666666555554 1 1334588999999999999999999999975 5689999 9999
Q ss_pred cCChHHHHHHHHHhhhhh
Q 006491 183 FSRRDSFITHRAFCDALA 200 (643)
Q Consensus 183 F~~ks~L~~H~~~Hh~~~ 200 (643)
|.....|.+|++..|++.
T Consensus 109 F~~~~sL~~H~~~~h~~~ 126 (128)
T PHA00733 109 FRNTDSTLDHVCKKHNIC 126 (128)
T ss_pred cCCHHHHHHHHHHhcCcc
Confidence 999999999999887754
No 14
>PHA00733 hypothetical protein
Probab=98.75 E-value=5.5e-09 Score=97.24 Aligned_cols=98 Identities=16% Similarity=0.143 Sum_probs=79.7
Q ss_pred ChhhhhcCccccCCCCccccCcccccccCchhHHhH--hhhcCCCccccccccccccCceeeCCCCCccCCCCCCcccCh
Q 006491 55 DAEVIALSPKTLMATNRFICEVCNKGFQREQNLQLH--RRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDL 132 (643)
Q Consensus 55 ~~~~l~~h~k~h~~~kpy~C~~CgK~F~~~~~L~~H--~r~H~~~~~~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~ 132 (643)
..+.+..+.......+++.|.+|.+.|.....|..| ++.|. .....++|.|+.| ++.|...
T Consensus 24 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~----------~~~~~kPy~C~~C-------gk~Fss~ 86 (128)
T PHA00733 24 TLEELKRYHSLTPEQKRLIRAVVKTLIYNPQLLDESSYLYKLL----------TSKAVSPYVCPLC-------LMPFSSS 86 (128)
T ss_pred CHHHhhhhhcCChhhhhHHHHHHhhhccChhhhcchHHHHhhc----------ccCCCCCccCCCC-------CCcCCCH
Confidence 345666665556667899999999999998888777 33321 1135789999998 9999999
Q ss_pred hhHHhHhhhccCCcccccccccccccchhhhhhcccc-cC
Q 006491 133 TGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAHSKT-CG 171 (643)
Q Consensus 133 s~L~~H~r~H~geKpfkC~~CgKsF~~ks~L~~H~rt-hg 171 (643)
..|..|++.| +++|.|.+|++.|.....|.+|++. |+
T Consensus 87 s~L~~H~r~h--~~~~~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 87 VSLKQHIRYT--EHSKVCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred HHHHHHHhcC--CcCccCCCCCCccCCHHHHHHHHHHhcC
Confidence 9999999987 4689999999999999999999987 64
No 15
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.64 E-value=7.1e-09 Score=110.39 Aligned_cols=152 Identities=14% Similarity=0.174 Sum_probs=114.2
Q ss_pred CCCCCCCCCCCCCChhhhhcCccccCCCCccccCcccccccCchhHHhHhhhcCCCcccc-----c-ccc----------
Q 006491 42 QKKKRNQPGTPNPDAEVIALSPKTLMATNRFICEVCNKGFQREQNLQLHRRGHNLPWKLK-----Q-KTT---------- 105 (643)
Q Consensus 42 ~~~~c~~cg~~~~~~~~l~~h~k~h~~~kpy~C~~CgK~F~~~~~L~~H~r~H~~~~~~~-----~-~~~---------- 105 (643)
-.+-|..|...|.|.-.|..|+......--|+|++|+|.|....+|..|+|.|.-..... . +..
T Consensus 266 GdyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea 345 (500)
T KOG3993|consen 266 GDYICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEA 345 (500)
T ss_pred HHHHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhc
Confidence 347799999999999999999877666666999999999999999999999995111110 0 000
Q ss_pred ----ccccCceeeCCCCCccCCCCCCcccChhhHHhHhhhccCC------------------------------------
Q 006491 106 ----KEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGE------------------------------------ 145 (643)
Q Consensus 106 ----~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~ge------------------------------------ 145 (643)
.......|.|.+| +|.|.+...|++|+.+|+..
T Consensus 346 ~rsg~dss~gi~~C~~C-------~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g 418 (500)
T KOG3993|consen 346 ERSGDDSSSGIFSCHTC-------GKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHG 418 (500)
T ss_pred cccCCcccCceeecHHh-------hhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccccccccc
Confidence 0123347999998 99999999999998887631
Q ss_pred ----------cccccccccccccchhhhhhcccc-cCCceeecC-CCCCcCChHHHHHHHHHhhhhh
Q 006491 146 ----------KKWKCEKCSKRYAVQSDWKAHSKT-CGTREYRCD-CGTLFSRRDSFITHRAFCDALA 200 (643)
Q Consensus 146 ----------KpfkC~~CgKsF~~ks~L~~H~rt-hgeKpy~C~-CgK~F~~ks~L~~H~~~Hh~~~ 200 (643)
....|++|+..+..+..-..|.|. +-+.-|.|+ |.-.|.....|.+|+..+|...
T Consensus 419 ~~vl~~a~sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~Hpse 485 (500)
T KOG3993|consen 419 DEVLYVAGSAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCHPSE 485 (500)
T ss_pred cceeeeeccccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcChHH
Confidence 012356666666666665666665 666779999 9999999999999998887543
No 16
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.36 E-value=2.7e-07 Score=98.56 Aligned_cols=113 Identities=16% Similarity=0.371 Sum_probs=77.7
Q ss_pred ccccCcccccccCchhHHhHhhhcCCCccccccccccccCceeeCCCCCccCCCCCCcccChhhHHhHhhhccCCccc-c
Q 006491 71 RFICEVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKW-K 149 (643)
Q Consensus 71 py~C~~CgK~F~~~~~L~~H~r~H~~~~~~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~geKpf-k 149 (643)
.|.|..|...|.+...|..|+-.. +-...|+|++| +|+|....+|..|+|+|.-.+-- +
T Consensus 267 dyiCqLCK~kYeD~F~LAQHrC~R-------------IV~vEYrCPEC-------~KVFsCPANLASHRRWHKPR~eaa~ 326 (500)
T KOG3993|consen 267 DYICQLCKEKYEDAFALAQHRCPR-------------IVHVEYRCPEC-------DKVFSCPANLASHRRWHKPRPEAAK 326 (500)
T ss_pred HHHHHHHHHhhhhHHHHhhccCCe-------------eEEeeecCCcc-------cccccCchhhhhhhcccCCchhhhh
Confidence 399999999999999999997443 34578999999 99999999999999999632100 0
Q ss_pred --cccccccccchhhhhhcccc---cCCceeecC-CCCCcCChHHHHHHHHHhhhhhhhh
Q 006491 150 --CEKCSKRYAVQSDWKAHSKT---CGTREYRCD-CGTLFSRRDSFITHRAFCDALAQES 203 (643)
Q Consensus 150 --C~~CgKsF~~ks~L~~H~rt---hgeKpy~C~-CgK~F~~ks~L~~H~~~Hh~~~~~~ 203 (643)
-..=.+.-......+.-.|. ..+..|.|. |+|.|++...|++|+..|+......
T Consensus 327 a~~~P~k~~~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k 386 (500)
T KOG3993|consen 327 AGSPPPKQAVETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAK 386 (500)
T ss_pred cCCCChhhhhhhhhhhhhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccch
Confidence 00000011111111111222 233579999 9999999999999999997655443
No 17
>PHA02768 hypothetical protein; Provisional
Probab=98.33 E-value=1e-07 Score=75.16 Aligned_cols=43 Identities=14% Similarity=0.298 Sum_probs=29.4
Q ss_pred eeCCCCCccCCCCCCcccChhhHHhHhhhccCCcccccccccccccchhhhh
Q 006491 113 YLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWK 164 (643)
Q Consensus 113 y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~geKpfkC~~CgKsF~~ks~L~ 164 (643)
|.|++| ++.|.....|..|+++|+ ++|+|..|+|.|.+.+.|.
T Consensus 6 y~C~~C-------GK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 6 YECPIC-------GEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred cCcchh-------CCeeccHHHHHHHHHhcC--CcccCCcccceecccceeE
Confidence 566666 677777777777777766 5677777777776665553
No 18
>PHA02768 hypothetical protein; Provisional
Probab=98.21 E-value=6e-07 Score=70.82 Aligned_cols=44 Identities=16% Similarity=0.446 Sum_probs=40.1
Q ss_pred ccccccccccccchhhhhhcccccCCceeecC-CCCCcCChHHHHH
Q 006491 147 KWKCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CGTLFSRRDSFIT 191 (643)
Q Consensus 147 pfkC~~CgKsF~~ks~L~~H~rthgeKpy~C~-CgK~F~~ks~L~~ 191 (643)
-|+|++|+|.|...+.|..|+|+|. ++|+|. |+|.|.+.+.|+.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~-k~~kc~~C~k~f~~~s~l~~ 49 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN-TNLKLSNCKRISLRTGEYIE 49 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC-CcccCCcccceecccceeEE
Confidence 4899999999999999999999965 899999 9999999888763
No 19
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.07 E-value=1.6e-06 Score=58.37 Aligned_cols=26 Identities=31% Similarity=0.797 Sum_probs=23.3
Q ss_pred hHHhHhhhccCCcccccccccccccc
Q 006491 134 GIKKHYSRKHGEKKWKCEKCSKRYAV 159 (643)
Q Consensus 134 ~L~~H~r~H~geKpfkC~~CgKsF~~ 159 (643)
.|.+|+++|+++|||+|++|++.|.+
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEESS
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeCc
Confidence 48899999999999999999999863
No 20
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.87 E-value=2.9e-06 Score=87.89 Aligned_cols=50 Identities=30% Similarity=0.656 Sum_probs=37.3
Q ss_pred Cccccccc--ccccccchhhhhhcccc-c-------------------CCceeecC-CCCCcCChHHHHHHHH
Q 006491 145 EKKWKCEK--CSKRYAVQSDWKAHSKT-C-------------------GTREYRCD-CGTLFSRRDSFITHRA 194 (643)
Q Consensus 145 eKpfkC~~--CgKsF~~ks~L~~H~rt-h-------------------geKpy~C~-CgK~F~~ks~L~~H~~ 194 (643)
+|||+|++ |+|.|+.+.-|+.|+.. | ..|||+|+ |+|+|+...-|+.|++
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 36666655 66666666666666554 3 45999999 9999999999999976
No 21
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.68 E-value=1.6e-05 Score=82.38 Aligned_cols=56 Identities=34% Similarity=0.682 Sum_probs=49.5
Q ss_pred cCceeeCCCCCccCCCCCCcccChhhHHhHhhhcc-------------------CCcccccccccccccchhhhhhcccc
Q 006491 109 KRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKH-------------------GEKKWKCEKCSKRYAVQSDWKAHSKT 169 (643)
Q Consensus 109 ~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~-------------------geKpfkC~~CgKsF~~ks~L~~H~rt 169 (643)
.+|||+|++.+| .|+|+....|+.|+.--+ .+|||+|++|+|+|+...-|+.|++.
T Consensus 346 d~KpykCpV~gC-----~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~H 420 (423)
T COG5189 346 DGKPYKCPVEGC-----NKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRKH 420 (423)
T ss_pred cCceecCCCCCc-----hhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceecccc
Confidence 469999999988 999999999999987522 25899999999999999999999875
No 22
>PHA00732 hypothetical protein
Probab=97.46 E-value=5.2e-05 Score=64.83 Aligned_cols=45 Identities=27% Similarity=0.454 Sum_probs=29.4
Q ss_pred eeeCCCCCccCCCCCCcccChhhHHhHhhh-ccCCcccccccccccccchhhhhhcccc
Q 006491 112 VYLCPEPTCVHHDPSRALGDLTGIKKHYSR-KHGEKKWKCEKCSKRYAVQSDWKAHSKT 169 (643)
Q Consensus 112 ~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~-H~geKpfkC~~CgKsF~~ks~L~~H~rt 169 (643)
+|.|++| ++.|.....|+.|++. |. ++.|++|++.|. .|..|+++
T Consensus 1 py~C~~C-------gk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~ 46 (79)
T PHA00732 1 MFKCPIC-------GFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFYS 46 (79)
T ss_pred CccCCCC-------CCccCCHHHHHHHhhcccC---CCccCCCCCEeC---Chhhhhcc
Confidence 4667666 7777777777777764 43 346777777776 46666654
No 23
>PHA00616 hypothetical protein
Probab=97.41 E-value=3.7e-05 Score=58.04 Aligned_cols=34 Identities=18% Similarity=0.255 Sum_probs=21.6
Q ss_pred eeeCCCCCccCCCCCCcccChhhHHhHhhhccCCccccccc
Q 006491 112 VYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEK 152 (643)
Q Consensus 112 ~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~geKpfkC~~ 152 (643)
+|.|+.| ++.|..+..|.+|++.|++++++.|+.
T Consensus 1 pYqC~~C-------G~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRC-------GGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred CCccchh-------hHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 4566665 666666666666666666666666654
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=97.28 E-value=7.2e-05 Score=50.30 Aligned_cols=24 Identities=38% Similarity=0.951 Sum_probs=21.7
Q ss_pred hhhhcccc-cCCceeecC-CCCCcCC
Q 006491 162 DWKAHSKT-CGTREYRCD-CGTLFSR 185 (643)
Q Consensus 162 ~L~~H~rt-hgeKpy~C~-CgK~F~~ 185 (643)
+|.+|+++ +++|||.|+ |++.|.+
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEESS
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeCc
Confidence 48899999 899999999 9999964
No 25
>PHA00732 hypothetical protein
Probab=97.17 E-value=0.00027 Score=60.43 Aligned_cols=45 Identities=18% Similarity=0.325 Sum_probs=39.2
Q ss_pred ccccccccccccchhhhhhcccc-cCCceeecC-CCCCcCChHHHHHHHHHh
Q 006491 147 KWKCEKCSKRYAVQSDWKAHSKT-CGTREYRCD-CGTLFSRRDSFITHRAFC 196 (643)
Q Consensus 147 pfkC~~CgKsF~~ks~L~~H~rt-hgeKpy~C~-CgK~F~~ks~L~~H~~~H 196 (643)
||+|+.|++.|.....|+.|++. |. ++.|+ |++.|. .|..|.+.+
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~--~~~C~~CgKsF~---~l~~H~~~~ 47 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT--LTKCPVCNKSYR---RLNQHFYSQ 47 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC--CCccCCCCCEeC---Chhhhhccc
Confidence 68999999999999999999985 54 46899 999998 488898655
No 26
>PHA00616 hypothetical protein
Probab=97.13 E-value=0.00015 Score=54.71 Aligned_cols=32 Identities=9% Similarity=0.312 Sum_probs=30.7
Q ss_pred ccccccccccccchhhhhhcccc-cCCceeecC
Q 006491 147 KWKCEKCSKRYAVQSDWKAHSKT-CGTREYRCD 178 (643)
Q Consensus 147 pfkC~~CgKsF~~ks~L~~H~rt-hgeKpy~C~ 178 (643)
||+|..||+.|..+++|..|++. |+++++.|+
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcccee
Confidence 69999999999999999999999 999999987
No 27
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.02 E-value=0.00052 Score=78.90 Aligned_cols=110 Identities=18% Similarity=0.215 Sum_probs=70.9
Q ss_pred ccCcccccccCchhHHhHhhhcCCCccccccccccccCceeeCCCCCccCC--CCCCcccChhhHHhHhhhc-cCCcc--
Q 006491 73 ICEVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHH--DPSRALGDLTGIKKHYSRK-HGEKK-- 147 (643)
Q Consensus 73 ~C~~CgK~F~~~~~L~~H~r~H~~~~~~~~~~~~~~~~k~y~C~~C~C~~~--~~~k~F~~~s~L~~H~r~H-~geKp-- 147 (643)
.|..| -.|.....|+.|++..| +.+.|.+|.+.-. ++.+.......|..|++.- .+++.
T Consensus 117 ~~~~c-~~~~s~~~Lk~H~~~~H---------------~~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~~s~r 180 (669)
T KOG2231|consen 117 ECLHC-TEFKSVENLKNHMRDQH---------------KLHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDDESCR 180 (669)
T ss_pred CCccc-cchhHHHHHHHHHHHhh---------------hhhccccccccceeeeeeeehehHHHHHHHHhcCCCcccccc
Confidence 34444 44457788999985433 4455666543100 1123334456677777652 22332
Q ss_pred --cccccccccccchhhhhhcccccCCceeec---C-CCCCcCChHHHHHHHHHhhh
Q 006491 148 --WKCEKCSKRYAVQSDWKAHSKTCGTREYRC---D-CGTLFSRRDSFITHRAFCDA 198 (643)
Q Consensus 148 --fkC~~CgKsF~~ks~L~~H~rthgeKpy~C---~-CgK~F~~ks~L~~H~~~Hh~ 198 (643)
-.|..|...|.....|.+|++.+.+--..| + |..-|.....|..|-+.+|.
T Consensus 181 Ghp~C~~C~~~fld~~el~rH~~~~h~~chfC~~~~~~neyy~~~~dLe~HfR~~Hf 237 (669)
T KOG2231|consen 181 GHPLCKFCHERFLDDDELYRHLRFDHEFCHFCDYKTGQNEYYNDYDDLEEHFRKGHF 237 (669)
T ss_pred CCccchhhhhhhccHHHHHHhhccceeheeecCcccccchhcccchHHHHHhhhcCc
Confidence 369999999999999999999844444445 2 66778889999999987764
No 28
>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=96.86 E-value=0.00076 Score=53.31 Aligned_cols=47 Identities=21% Similarity=0.449 Sum_probs=23.9
Q ss_pred cccccccccccchhhhhhcccc-cC--CceeecC-CCCCcCChHHHHHHHHHhh
Q 006491 148 WKCEKCSKRYAVQSDWKAHSKT-CG--TREYRCD-CGTLFSRRDSFITHRAFCD 197 (643)
Q Consensus 148 fkC~~CgKsF~~ks~L~~H~rt-hg--eKpy~C~-CgK~F~~ks~L~~H~~~Hh 197 (643)
|.|++|++ ......|..|... |. .+.+.|+ |.+.+. .+|.+|++.+|
T Consensus 3 f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 3 FTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred cCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 55555555 3334455555554 32 2345565 655433 36666665543
No 29
>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=96.77 E-value=0.0012 Score=52.08 Aligned_cols=52 Identities=27% Similarity=0.502 Sum_probs=31.1
Q ss_pred ccccCcccccccCchhHHhHhhhcCCCccccccccccccCceeeCCCCCccCCCCCCcccChhhHHhHhhhcc
Q 006491 71 RFICEVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKH 143 (643)
Q Consensus 71 py~C~~CgK~F~~~~~L~~H~r~H~~~~~~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~ 143 (643)
.|.|++|++. .+...|..|....+. ...+.+.|++| ...+. ..|..|+..++
T Consensus 2 ~f~CP~C~~~-~~~~~L~~H~~~~H~-----------~~~~~v~CPiC-------~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPYCGKG-FSESSLVEHCEDEHR-----------SESKNVVCPIC-------SSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCCCCCc-cCHHHHHHHHHhHCc-----------CCCCCccCCCc-------hhhhh--hHHHHHHHHhc
Confidence 3778888884 445677777655431 12346777777 44333 36777776654
No 30
>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=96.75 E-value=0.0009 Score=43.17 Aligned_cols=22 Identities=32% Similarity=0.748 Sum_probs=16.2
Q ss_pred eecC-CCCCcCChHHHHHHHHHh
Q 006491 175 YRCD-CGTLFSRRDSFITHRAFC 196 (643)
Q Consensus 175 y~C~-CgK~F~~ks~L~~H~~~H 196 (643)
|+|+ |++.|.++..|.+|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 6677 777777777777777763
No 31
>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=96.73 E-value=0.00053 Score=44.27 Aligned_cols=23 Identities=39% Similarity=0.899 Sum_probs=21.5
Q ss_pred cccCcccccccCchhHHhHhhhc
Q 006491 72 FICEVCNKGFQREQNLQLHRRGH 94 (643)
Q Consensus 72 y~C~~CgK~F~~~~~L~~H~r~H 94 (643)
|+|++|++.|.++..|+.|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 78999999999999999999874
No 32
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=96.47 E-value=0.0042 Score=66.93 Aligned_cols=140 Identities=19% Similarity=0.203 Sum_probs=87.1
Q ss_pred CCCCCCCCCCCCCChhhhhcCcc--ccCCC--CccccC--cccccccCchhHHhHhhhcCCCccccccc-----------
Q 006491 42 QKKKRNQPGTPNPDAEVIALSPK--TLMAT--NRFICE--VCNKGFQREQNLQLHRRGHNLPWKLKQKT----------- 104 (643)
Q Consensus 42 ~~~~c~~cg~~~~~~~~l~~h~k--~h~~~--kpy~C~--~CgK~F~~~~~L~~H~r~H~~~~~~~~~~----------- 104 (643)
....|..|...+.....+..|.+ .|..+ +++.|+ .|++.|.+...+..|...|..........
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 367 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLL 367 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCcccccccc
Confidence 46889999999999999999999 89999 999999 79999999999999999986221111000
Q ss_pred -----------cccccCceeeCCCCCccCCCCCCcccChhhHHhHhhhccCCc--ccccccccccccchhhhhhcccccC
Q 006491 105 -----------TKEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEK--KWKCEKCSKRYAVQSDWKAHSKTCG 171 (643)
Q Consensus 105 -----------~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~geK--pfkC~~CgKsF~~ks~L~~H~rthg 171 (643)
......+.+.|..-.| .+.+.....+..|...|...+ .++|..|.+.|.....+..|++.+.
T Consensus 368 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 442 (467)
T COG5048 368 NNEPPQSLQQYKDLKNDKKSETLSNSC-----IRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHT 442 (467)
T ss_pred CCCCccchhhccCccCCccccccccch-----hhhhccccccccccccccccCCcCCCCCcchhhccCcccccccccccc
Confidence 0001112223332222 445555555555655555544 3445556666666666666666633
Q ss_pred C-ceeecCCCCCcCCh
Q 006491 172 T-REYRCDCGTLFSRR 186 (643)
Q Consensus 172 e-Kpy~C~CgK~F~~k 186 (643)
. .++.|.+-+.|...
T Consensus 443 ~~~~~~~~~~~~~~~~ 458 (467)
T COG5048 443 NHAPLLCSILKSFRRD 458 (467)
T ss_pred cCCceeeccccccchh
Confidence 3 33333344444433
No 33
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=96.45 E-value=0.0041 Score=66.94 Aligned_cols=149 Identities=15% Similarity=0.139 Sum_probs=106.3
Q ss_pred CccccCcccccccCchhHHhHhh--hcCCCccccccccccccC--ceeeCC--CCCccCCCCCCcccChhhHHhHhhhcc
Q 006491 70 NRFICEVCNKGFQREQNLQLHRR--GHNLPWKLKQKTTKEVKR--KVYLCP--EPTCVHHDPSRALGDLTGIKKHYSRKH 143 (643)
Q Consensus 70 kpy~C~~CgK~F~~~~~L~~H~r--~H~~~~~~~~~~~~~~~~--k~y~C~--~C~C~~~~~~k~F~~~s~L~~H~r~H~ 143 (643)
.++.|..|.+.|.....|..|.+ .|. .+ +++.|+ .| ++.|.+...+..|..+|.
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~-------------~~~~~~~~~p~~~~-------~~~~~~~~~~~~~~~~~~ 347 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHS-------------GESLKPFSCPYSLC-------GKLFSRNDALKRHILLHT 347 (467)
T ss_pred cCCCCccccCCccccccccccccccccc-------------cccCCceeeeccCC-------CccccccccccCCccccc
Confidence 57899999999999999999998 674 66 899998 56 899999999999999999
Q ss_pred CCccccccc--ccccccchhhhh-----hcccc-cCCceeecC---CCCCcCChHHHHHHHHHhhhhhhhhhhcCCCccc
Q 006491 144 GEKKWKCEK--CSKRYAVQSDWK-----AHSKT-CGTREYRCD---CGTLFSRRDSFITHRAFCDALAQESARHQPSLSA 212 (643)
Q Consensus 144 geKpfkC~~--CgKsF~~ks~L~-----~H~rt-hgeKpy~C~---CgK~F~~ks~L~~H~~~Hh~~~~~~~~~~~~~~~ 212 (643)
..++++|.. |.+.+.....-. ..... ...+.+.|. |-+.+.+...+..|...|-.
T Consensus 348 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------- 413 (467)
T COG5048 348 SISPAKEKLLNSSSKFSPLLNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLS-------------- 413 (467)
T ss_pred CCCccccccccCccccccccCCCCccchhhccCccCCccccccccchhhhhccccccccccccccc--------------
Confidence 988888765 555555444321 11112 556777884 88888888888888776621
Q ss_pred cCCCCccCCccccccccccchhhhhhhhccCCCCcccccccC
Q 006491 213 IGSHLYASTNNMALGLSQVGPQLSSIKDHHQTNQSGDILCLG 254 (643)
Q Consensus 213 ~~~k~y~C~~~C~~~fs~~s~L~~H~k~hh~~~~p~~c~~cg 254 (643)
.....+.+.. |.+.+...-.+..|++.| ....+..|..+.
T Consensus 414 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~ 453 (467)
T COG5048 414 FRPYNCKNPP-CSKSFNRHYNLIPHKKIH-TNHAPLLCSILK 453 (467)
T ss_pred cCCcCCCCCc-chhhccCccccccccccc-ccCCceeecccc
Confidence 2223445555 888888888888888776 333444444443
No 34
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.35 E-value=0.0013 Score=57.11 Aligned_cols=22 Identities=23% Similarity=0.572 Sum_probs=0.0
Q ss_pred ccCcccccccCchhHHhHhhhc
Q 006491 73 ICEVCNKGFQREQNLQLHRRGH 94 (643)
Q Consensus 73 ~C~~CgK~F~~~~~L~~H~r~H 94 (643)
+|..|+..|.....|..|+...
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~ 22 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKK 22 (100)
T ss_dssp ----------------------
T ss_pred Cccccccccccccccccccccc
Confidence 4777777777777777776544
No 35
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=96.23 E-value=0.0035 Score=40.14 Aligned_cols=23 Identities=22% Similarity=0.634 Sum_probs=15.6
Q ss_pred eecC-CCCCcCChHHHHHHHHHhh
Q 006491 175 YRCD-CGTLFSRRDSFITHRAFCD 197 (643)
Q Consensus 175 y~C~-CgK~F~~ks~L~~H~~~Hh 197 (643)
|.|+ |++.|..+..|.+|++.||
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 5677 7777777777777777664
No 36
>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=96.11 E-value=0.0025 Score=40.87 Aligned_cols=24 Identities=38% Similarity=0.893 Sum_probs=20.1
Q ss_pred cccCcccccccCchhHHhHhhhcC
Q 006491 72 FICEVCNKGFQREQNLQLHRRGHN 95 (643)
Q Consensus 72 y~C~~CgK~F~~~~~L~~H~r~H~ 95 (643)
|+|++|++.|.++..|+.|++.|+
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 789999999999999999998763
No 37
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=95.91 E-value=0.0034 Score=42.07 Aligned_cols=25 Identities=36% Similarity=0.727 Sum_probs=23.4
Q ss_pred ccccCcccccccCchhHHhHhhhcC
Q 006491 71 RFICEVCNKGFQREQNLQLHRRGHN 95 (643)
Q Consensus 71 py~C~~CgK~F~~~~~L~~H~r~H~ 95 (643)
+|+|.+|++.|.+...|..|++.|.
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhc
Confidence 5899999999999999999999884
No 38
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=95.90 E-value=0.0052 Score=53.38 Aligned_cols=72 Identities=17% Similarity=0.272 Sum_probs=21.0
Q ss_pred eCCCCCccCCCCCCcccChhhHHhHhhhccCCcccccccccccccchhhhhhcccccCCceeecC-CCCCcCChHHHHHH
Q 006491 114 LCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CGTLFSRRDSFITH 192 (643)
Q Consensus 114 ~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~geKpfkC~~CgKsF~~ks~L~~H~rthgeKpy~C~-CgK~F~~ks~L~~H 192 (643)
+|..| +..|.....|..|+...++-.. + ..+.+.....+..+.+..-...+.|. |++.|.....|..|
T Consensus 1 ~C~~C-------~~~f~~~~~l~~H~~~~H~~~~---~-~~~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~~l~~H 69 (100)
T PF12756_consen 1 QCLFC-------DESFSSVDDLLQHMKKKHGFDI---P-DQKYLVDPNRLLNYLRKKVKESFRCPYCNKTFRSREALQEH 69 (100)
T ss_dssp -----------------------------------------------------------SSEEBSSSS-EESSHHHHHHH
T ss_pred Ccccc-------cccccccccccccccccccccc---c-cccccccccccccccccccCCCCCCCccCCCCcCHHHHHHH
Confidence 36666 8999999999999987654321 1 11222234444445444333479999 99999999999999
Q ss_pred HHHh
Q 006491 193 RAFC 196 (643)
Q Consensus 193 ~~~H 196 (643)
++.+
T Consensus 70 m~~~ 73 (100)
T PF12756_consen 70 MRSK 73 (100)
T ss_dssp HHHT
T ss_pred HcCc
Confidence 9965
No 39
>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=95.88 E-value=0.0034 Score=42.08 Aligned_cols=24 Identities=29% Similarity=0.650 Sum_probs=16.5
Q ss_pred eeecC-CCCCcCChHHHHHHHHHhh
Q 006491 174 EYRCD-CGTLFSRRDSFITHRAFCD 197 (643)
Q Consensus 174 py~C~-CgK~F~~ks~L~~H~~~Hh 197 (643)
+|.|+ |++.|.....|..|++.|+
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhc
Confidence 46676 7777777777777776664
No 40
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.59 E-value=0.014 Score=61.80 Aligned_cols=133 Identities=17% Similarity=0.295 Sum_probs=77.3
Q ss_pred cccCc--ccccccCchhHHhHhhhcCCCccccccccccccCceeeCCCCCccCCCCCCccc------ChhhHHhHhhhcc
Q 006491 72 FICEV--CNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALG------DLTGIKKHYSRKH 143 (643)
Q Consensus 72 y~C~~--CgK~F~~~~~L~~H~r~H~~~~~~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F~------~~s~L~~H~r~H~ 143 (643)
|.|+. |..+......|+.|.+..+ ..+.|.+|-- ..+.|. ....|..|...-.
T Consensus 152 F~CP~skc~~~C~~~k~lk~H~K~~H---------------~~~~C~~C~~----nKk~F~~E~~lF~~~~Lr~H~~~G~ 212 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKAQH---------------GFVLCSECIG----NKKDFWNEIRLFRSSTLRDHKNGGL 212 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhhc---------------CcEEhHhhhc----CcccCccceeeeecccccccccCCc
Confidence 67775 6665555677888877654 2334444411 012222 2344555655433
Q ss_pred CCccc----ccccccccccchhhhhhcccccCCceeecC-CC----CCcCChHHHHHHHHHhhhhhhhhhhcCCCccccC
Q 006491 144 GEKKW----KCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CG----TLFSRRDSFITHRAFCDALAQESARHQPSLSAIG 214 (643)
Q Consensus 144 geKpf----kC~~CgKsF~~ks~L~~H~rthgeKpy~C~-Cg----K~F~~ks~L~~H~~~Hh~~~~~~~~~~~~~~~~~ 214 (643)
.+.-| .|..|.+.|..-..|.+|+|.-.|+-|.|+ -+ .-|+....|.+|.+.-
T Consensus 213 ~e~GFKGHP~C~FC~~~FYdDDEL~~HcR~~HE~ChICD~v~p~~~QYFK~Y~~Le~HF~~~------------------ 274 (493)
T COG5236 213 EEEGFKGHPLCIFCKIYFYDDDELRRHCRLRHEACHICDMVGPIRYQYFKSYEDLEAHFRNA------------------ 274 (493)
T ss_pred cccCcCCCchhhhccceecChHHHHHHHHhhhhhhhhhhccCccchhhhhCHHHHHHHhhcC------------------
Confidence 33222 488888888888888888887446667775 32 3477777788876643
Q ss_pred CCCccCCc-cc----cccccccchhhhhhhhccC
Q 006491 215 SHLYASTN-NM----ALGLSQVGPQLSSIKDHHQ 243 (643)
Q Consensus 215 ~k~y~C~~-~C----~~~fs~~s~L~~H~k~hh~ 243 (643)
.|.|.. .| -..|..--.|+.|+..-|.
T Consensus 275 --hy~ct~qtc~~~k~~vf~~~~el~~h~~~~h~ 306 (493)
T COG5236 275 --HYCCTFQTCRVGKCYVFPYHTELLEHLTRFHK 306 (493)
T ss_pred --ceEEEEEEEecCcEEEeccHHHHHHHHHHHhh
Confidence 233331 12 2346667788888866655
No 41
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=95.13 E-value=0.02 Score=69.82 Aligned_cols=137 Identities=12% Similarity=0.107 Sum_probs=76.3
Q ss_pred cCceeeCCCCCccCCCCCCcccChhhHHhHhhhccCCcccccccccccccchhhhhhccc-ccCCceeecC-CCCCcCCh
Q 006491 109 KRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAHSK-TCGTREYRCD-CGTLFSRR 186 (643)
Q Consensus 109 ~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~geKpfkC~~CgKsF~~ks~L~~H~r-thgeKpy~C~-CgK~F~~k 186 (643)
..|.|+|+.| .+.|+....|..|+|..+-+-.- .+|. .+.....+.+=.. ..+.++|.|. |...+..+
T Consensus 462 ~~kt~~cpkc-------~~~yk~a~~L~vhmRskhp~~~~--~~c~-~gq~~~~~arg~~~~~~~~p~~C~~C~~stttn 531 (1406)
T KOG1146|consen 462 FFKTLKCPKC-------NWHYKLAQTLGVHMRSKHPESQS--AYCK-AGQNHPRLARGEVYRCPGKPYPCRACNYSTTTN 531 (1406)
T ss_pred ccccccCCcc-------chhhhhHHHhhhcccccccccch--hHhH-hccccccccccccccCCCCcccceeeeeeeecc
Confidence 4477888887 78888888888888874432111 3331 1111111111111 1567899999 99999999
Q ss_pred HHHHHHHHHh--hhhhhhh---------------hhcCCCcc----------ccCCCCccCCccccccccccchhhhhhh
Q 006491 187 DSFITHRAFC--DALAQES---------------ARHQPSLS----------AIGSHLYASTNNMALGLSQVGPQLSSIK 239 (643)
Q Consensus 187 s~L~~H~~~H--h~~~~~~---------------~~~~~~~~----------~~~~k~y~C~~~C~~~fs~~s~L~~H~k 239 (643)
..|.+|++.. ....... +...+... ...+..+.|.. |..--.-..+|..||.
T Consensus 532 g~LsihlqS~~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~ags~~pktkP~~~C~v-c~yetniarnlrihmt 610 (1406)
T KOG1146|consen 532 GNLSIHLQSDLHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSAGSSGPKTKPSWRCEV-CSYETNIARNLRIHMT 610 (1406)
T ss_pred hHHHHHHHHHhhHHHHHHHHhccccchhhhhhhhcccCcccccCCCCCCCCCCCCCCCcchhh-hcchhhhhhccccccc
Confidence 9999998643 2221110 00111100 11123467776 7655555566777776
Q ss_pred hccCCCCcccccccCCC
Q 006491 240 DHHQTNQSGDILCLGGS 256 (643)
Q Consensus 240 ~hh~~~~p~~c~~cg~a 256 (643)
.-+...-|..|+.+.-.
T Consensus 611 ss~~s~~p~~~Lq~~it 627 (1406)
T KOG1146|consen 611 ASPSSSPPSLVLQQNIT 627 (1406)
T ss_pred cCCCCCChHHHhhhcch
Confidence 54444445667777654
No 42
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.67 E-value=0.026 Score=65.33 Aligned_cols=128 Identities=19% Similarity=0.243 Sum_probs=76.1
Q ss_pred CCCCCCCCCCCCCChhhhhcCccccCCCCccccCcc----------cccccCchhHHhHhhhcCCCccccccccccccCc
Q 006491 42 QKKKRNQPGTPNPDAEVIALSPKTLMATNRFICEVC----------NKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRK 111 (643)
Q Consensus 42 ~~~~c~~cg~~~~~~~~l~~h~k~h~~~kpy~C~~C----------gK~F~~~~~L~~H~r~H~~~~~~~~~~~~~~~~k 111 (643)
.++.|..| ..|.....|..|....+ +.+.|.+| .|.| +...|..|++.-- + ....+.+
T Consensus 114 ~~~~~~~c-~~~~s~~~Lk~H~~~~H--~~~~c~lC~~~~kif~~e~k~Y-t~~el~~h~~~gd-~-----d~~s~rG-- 181 (669)
T KOG2231|consen 114 NKKECLHC-TEFKSVENLKNHMRDQH--KLHLCSLCLQNLKIFINERKLY-TRAELNLHLMFGD-P-----DDESCRG-- 181 (669)
T ss_pred ccCCCccc-cchhHHHHHHHHHHHhh--hhhccccccccceeeeeeeehe-hHHHHHHHHhcCC-C-----ccccccC--
Confidence 34455555 44556777777774333 23455544 3333 4466677765431 0 0111111
Q ss_pred eeeCCCCCccCCCCCCcccChhhHHhHhhhccCCccccccccc------ccccchhhhhhcccc-cCCceeecC---CC-
Q 006491 112 VYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCS------KRYAVQSDWKAHSKT-CGTREYRCD---CG- 180 (643)
Q Consensus 112 ~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~geKpfkC~~Cg------KsF~~ks~L~~H~rt-hgeKpy~C~---Cg- 180 (643)
--.|..| ...|.....|.+|++.++ |.|..|+ ..|....+|..|.|. | |.|+ |.
T Consensus 182 hp~C~~C-------~~~fld~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~H----flCE~~~C~~ 246 (669)
T KOG2231|consen 182 HPLCKFC-------HERFLDDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH----FLCEEEFCRT 246 (669)
T ss_pred Cccchhh-------hhhhccHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhhhcC----cccccccccc
Confidence 3467777 889999999999999876 6677774 457778889999887 5 6664 43
Q ss_pred CCcCChHHHHHHHHHh
Q 006491 181 TLFSRRDSFITHRAFC 196 (643)
Q Consensus 181 K~F~~ks~L~~H~~~H 196 (643)
+.|..-..+..|++-|
T Consensus 247 ~~f~~~~~~ei~lk~~ 262 (669)
T KOG2231|consen 247 KKFYVAFELEIELKAH 262 (669)
T ss_pred ceeeehhHHHHHHHhh
Confidence 3333333455555533
No 43
>smart00355 ZnF_C2H2 zinc finger.
Probab=94.55 E-value=0.027 Score=36.26 Aligned_cols=22 Identities=32% Similarity=0.825 Sum_probs=18.6
Q ss_pred eecC-CCCCcCChHHHHHHHHHh
Q 006491 175 YRCD-CGTLFSRRDSFITHRAFC 196 (643)
Q Consensus 175 y~C~-CgK~F~~ks~L~~H~~~H 196 (643)
|+|. |++.|.....|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 5788 888888888899888866
No 44
>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=94.43 E-value=0.014 Score=45.42 Aligned_cols=30 Identities=13% Similarity=0.229 Sum_probs=14.8
Q ss_pred Ccccccccccccccchhhhhhcccc-cCCce
Q 006491 145 EKKWKCEKCSKRYAVQSDWKAHSKT-CGTRE 174 (643)
Q Consensus 145 eKpfkC~~CgKsF~~ks~L~~H~rt-hgeKp 174 (643)
++|-.|++|+..+....+|++|+.+ |+.||
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 4566666666666666666666655 55544
No 45
>smart00355 ZnF_C2H2 zinc finger.
Probab=94.42 E-value=0.02 Score=36.93 Aligned_cols=23 Identities=35% Similarity=0.719 Sum_probs=21.5
Q ss_pred cccCcccccccCchhHHhHhhhc
Q 006491 72 FICEVCNKGFQREQNLQLHRRGH 94 (643)
Q Consensus 72 y~C~~CgK~F~~~~~L~~H~r~H 94 (643)
|+|..|++.|.....|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 68999999999999999999876
No 46
>PRK04860 hypothetical protein; Provisional
Probab=94.24 E-value=0.025 Score=54.81 Aligned_cols=27 Identities=19% Similarity=0.597 Sum_probs=13.4
Q ss_pred hhhHHhHhhhccCCccccccccccccc
Q 006491 132 LTGIKKHYSRKHGEKKWKCEKCSKRYA 158 (643)
Q Consensus 132 ~s~L~~H~r~H~geKpfkC~~CgKsF~ 158 (643)
...+.+|.++|+++++|+|..|++.|.
T Consensus 128 ~~~~rrH~ri~~g~~~YrC~~C~~~l~ 154 (160)
T PRK04860 128 QLTVRRHNRVVRGEAVYRCRRCGETLV 154 (160)
T ss_pred eCHHHHHHHHhcCCccEECCCCCceeE
Confidence 334455555555555555555554443
No 47
>PRK04860 hypothetical protein; Provisional
Probab=93.17 E-value=0.029 Score=54.44 Aligned_cols=38 Identities=26% Similarity=0.693 Sum_probs=32.6
Q ss_pred cccccccccccccchhhhhhcccc-cCCceeecC-CCCCcCChH
Q 006491 146 KKWKCEKCSKRYAVQSDWKAHSKT-CGTREYRCD-CGTLFSRRD 187 (643)
Q Consensus 146 KpfkC~~CgKsF~~ks~L~~H~rt-hgeKpy~C~-CgK~F~~ks 187 (643)
-+|.|. |++ ....+++|.++ .++++|+|. |++.|....
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFKG 157 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEec
Confidence 379998 998 77788999999 889999999 999987643
No 48
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=93.16 E-value=0.037 Score=67.53 Aligned_cols=19 Identities=32% Similarity=0.602 Sum_probs=10.9
Q ss_pred cC-CCCCcCChHHHHHHHHH
Q 006491 177 CD-CGTLFSRRDSFITHRAF 195 (643)
Q Consensus 177 C~-CgK~F~~ks~L~~H~~~ 195 (643)
|. |...|..+..|..|++.
T Consensus 1331 c~~c~~~~~~~~alqihm~~ 1350 (1406)
T KOG1146|consen 1331 CLACEVLLSGREALQIHMRS 1350 (1406)
T ss_pred chHHHhhcchhHHHHHHHHH
Confidence 55 55555555555555554
No 49
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=93.09 E-value=0.038 Score=36.22 Aligned_cols=23 Identities=43% Similarity=0.986 Sum_probs=21.4
Q ss_pred cccCcccccccCchhHHhHhhhc
Q 006491 72 FICEVCNKGFQREQNLQLHRRGH 94 (643)
Q Consensus 72 y~C~~CgK~F~~~~~L~~H~r~H 94 (643)
|.|.+|++.|.++..|+.|++.+
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s~ 23 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRSK 23 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTTH
T ss_pred CCCCCCCCCcCCHHHHHHHHCcC
Confidence 68999999999999999999865
No 50
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=92.74 E-value=0.15 Score=54.14 Aligned_cols=94 Identities=13% Similarity=0.213 Sum_probs=65.7
Q ss_pred ccccccccccccchhhhhhcccc--cCC----------------------------------------------------
Q 006491 147 KWKCEKCSKRYAVQSDWKAHSKT--CGT---------------------------------------------------- 172 (643)
Q Consensus 147 pfkC~~CgKsF~~ks~L~~H~rt--hge---------------------------------------------------- 172 (643)
.+.|-.|.|.|..+..|+.|||. |.+
T Consensus 195 r~~CLyCekifrdkntLkeHMrkK~HrrinPknreYDkfyiINY~ev~ks~t~~~~e~dret~~d~~E~D~~wsDw~ed~ 274 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRKKRHRRINPKNREYDKFYIINYLEVGKSWTIVHSEDDRETNEDINETDDTWSDWNEDD 274 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHhccCcccCCCccccceEEEEeHhhcCCccchhhhhhhhhhhccccccccchhhhhcCC
Confidence 46788888888888888888876 410
Q ss_pred -ce--eecC-CCCCcCChHHHHHHHHHhhhhhhhhhhcCCCcc-----------ccCCCCccCCccccccccccchhhhh
Q 006491 173 -RE--YRCD-CGTLFSRRDSFITHRAFCDALAQESARHQPSLS-----------AIGSHLYASTNNMALGLSQVGPQLSS 237 (643)
Q Consensus 173 -Kp--y~C~-CgK~F~~ks~L~~H~~~Hh~~~~~~~~~~~~~~-----------~~~~k~y~C~~~C~~~fs~~s~L~~H 237 (643)
.+ .+|- |...+.....|..|+++.|............+. ....+...|-. |...|-....|+.|
T Consensus 275 a~a~~v~CLfC~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~-cd~~F~~e~~l~~h 353 (423)
T KOG2482|consen 275 AEALSVVCLFCTNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAE-CDLSFWKEPGLLIH 353 (423)
T ss_pred CCccceEEEeeccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhcccccc-ccccccCcchhhhh
Confidence 11 3898 999999999999999988765544332221111 11223445666 88899999999999
Q ss_pred hhhc
Q 006491 238 IKDH 241 (643)
Q Consensus 238 ~k~h 241 (643)
|-.+
T Consensus 354 m~e~ 357 (423)
T KOG2482|consen 354 MVED 357 (423)
T ss_pred cccc
Confidence 8654
No 51
>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=92.49 E-value=0.1 Score=40.70 Aligned_cols=33 Identities=15% Similarity=0.289 Sum_probs=24.5
Q ss_pred ccCceeeCCCCCccCCCCCCcccChhhHHhHhhhccCCcc
Q 006491 108 VKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKK 147 (643)
Q Consensus 108 ~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~geKp 147 (643)
..+.|..|++| +..+....+|++|+.++++.||
T Consensus 20 ~S~~PatCP~C-------~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 20 QSEQPATCPIC-------GAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TTS--EE-TTT---------EESSHHHHHHHHHHHTTTS-
T ss_pred ccCCCCCCCcc-------hhhccchhhHHHHHHHHhcccC
Confidence 46789999999 9999999999999999888776
No 52
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=92.32 E-value=0.039 Score=54.75 Aligned_cols=82 Identities=21% Similarity=0.489 Sum_probs=67.0
Q ss_pred cCceeeCCCCCccCCCCCCcccChhhHHhHhhhccCCcccccccccccccchhhhhhcccc-c----------CCceeec
Q 006491 109 KRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAHSKT-C----------GTREYRC 177 (643)
Q Consensus 109 ~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~geKpfkC~~CgKsF~~ks~L~~H~rt-h----------geKpy~C 177 (643)
..+.+.|++-+| -+.|.....+..|+.+-++. .|.+|.+.|.+..-|..|+.. | |..-|.|
T Consensus 76 ~~~~~~cqvagc-----~~~~d~lD~~E~hY~~~h~~---sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~C 147 (253)
T KOG4173|consen 76 RVPAFACQVAGC-----CQVFDALDDYEHHYHTLHGN---SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQC 147 (253)
T ss_pred ccccccccccch-----HHHHhhhhhHHHhhhhcccc---hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHH
Confidence 456788999877 78898888888888765443 799999999999999999875 4 4567999
Q ss_pred --C-CCCCcCChHHHHHHHHHhhh
Q 006491 178 --D-CGTLFSRRDSFITHRAFCDA 198 (643)
Q Consensus 178 --~-CgK~F~~ks~L~~H~~~Hh~ 198 (643)
+ |+..|++...-++|+-.-|+
T Consensus 148 lvEgCt~KFkT~r~RkdH~I~~Hk 171 (253)
T KOG4173|consen 148 LVEGCTEKFKTSRDRKDHMIRMHK 171 (253)
T ss_pred HHHhhhhhhhhhhhhhhHHHHhcc
Confidence 5 99999999999999855443
No 53
>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=91.81 E-value=0.1 Score=35.12 Aligned_cols=22 Identities=27% Similarity=0.742 Sum_probs=18.5
Q ss_pred cccccccccccchhhhhhcccc
Q 006491 148 WKCEKCSKRYAVQSDWKAHSKT 169 (643)
Q Consensus 148 fkC~~CgKsF~~ks~L~~H~rt 169 (643)
|.|..|++.|.....|+.|++.
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 6788888888888888888875
No 54
>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=91.59 E-value=0.075 Score=35.77 Aligned_cols=23 Identities=35% Similarity=0.832 Sum_probs=21.1
Q ss_pred cccCcccccccCchhHHhHhhhc
Q 006491 72 FICEVCNKGFQREQNLQLHRRGH 94 (643)
Q Consensus 72 y~C~~CgK~F~~~~~L~~H~r~H 94 (643)
|.|.+|++.|.+...|+.|++..
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~sk 24 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKSK 24 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTSH
T ss_pred CCcccCCCCcCCHHHHHHHHccC
Confidence 78999999999999999998764
No 55
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=91.27 E-value=0.17 Score=32.92 Aligned_cols=22 Identities=23% Similarity=0.490 Sum_probs=14.7
Q ss_pred eecC-CCCCcCChHHHHHHHHHhh
Q 006491 175 YRCD-CGTLFSRRDSFITHRAFCD 197 (643)
Q Consensus 175 y~C~-CgK~F~~ks~L~~H~~~Hh 197 (643)
|+|+ |..... +..|.+|++.||
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 6777 777776 777888877765
No 56
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=91.17 E-value=0.051 Score=57.73 Aligned_cols=52 Identities=29% Similarity=0.652 Sum_probs=42.0
Q ss_pred Cccccccc--ccccccchhhhhhcccc-c-------------------CCceeecC-CCCCcCChHHHHHHHHHh
Q 006491 145 EKKWKCEK--CSKRYAVQSDWKAHSKT-C-------------------GTREYRCD-CGTLFSRRDSFITHRAFC 196 (643)
Q Consensus 145 eKpfkC~~--CgKsF~~ks~L~~H~rt-h-------------------geKpy~C~-CgK~F~~ks~L~~H~~~H 196 (643)
+|+|+|++ |+|.+.....|+.|..+ | ..|+|+|+ |.|+++-...|+.|+..-
T Consensus 347 ~~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~~~~~ 421 (442)
T KOG4124|consen 347 DKPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLKYHRTHS 421 (442)
T ss_pred cCCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCCceeehh
Confidence 58899976 99999998888888765 3 35889999 999998887777776543
No 57
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=90.41 E-value=0.2 Score=53.26 Aligned_cols=107 Identities=21% Similarity=0.376 Sum_probs=71.5
Q ss_pred eeeCCCCCccCCCCCCcccChhhHHhHhhhccCCccccccccc---cccc------chhhhhhcccc-cCCce----eec
Q 006491 112 VYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCS---KRYA------VQSDWKAHSKT-CGTRE----YRC 177 (643)
Q Consensus 112 ~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~geKpfkC~~Cg---KsF~------~ks~L~~H~rt-hgeKp----y~C 177 (643)
.|.|+.-.| .........|+.|.+..++ .+.|.+|- +.|. ++..|+.|... -.+.- -.|
T Consensus 151 ~F~CP~skc-----~~~C~~~k~lk~H~K~~H~--~~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFKGHP~C 223 (493)
T COG5236 151 SFKCPKSKC-----HRRCGSLKELKKHYKAQHG--FVLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLC 223 (493)
T ss_pred HhcCCchhh-----hhhhhhHHHHHHHHHhhcC--cEEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchh
Confidence 478887655 6666778899999998654 36777772 3343 45667777766 22222 369
Q ss_pred C-CCCCcCChHHHHHHHHHhhhhhhhhhhcCCCccccCCCCccCCcc---ccccccccchhhhhhhhcc
Q 006491 178 D-CGTLFSRRDSFITHRAFCDALAQESARHQPSLSAIGSHLYASTNN---MALGLSQVGPQLSSIKDHH 242 (643)
Q Consensus 178 ~-CgK~F~~ks~L~~H~~~Hh~~~~~~~~~~~~~~~~~~k~y~C~~~---C~~~fs~~s~L~~H~k~hh 242 (643)
. |.+.|..-+.|.+|+|.-|. +.|.|... --.-|....+|..|.+.-|
T Consensus 224 ~FC~~~FYdDDEL~~HcR~~HE-----------------~ChICD~v~p~~~QYFK~Y~~Le~HF~~~h 275 (493)
T COG5236 224 IFCKIYFYDDDELRRHCRLRHE-----------------ACHICDMVGPIRYQYFKSYEDLEAHFRNAH 275 (493)
T ss_pred hhccceecChHHHHHHHHhhhh-----------------hhhhhhccCccchhhhhCHHHHHHHhhcCc
Confidence 9 99999999999999986542 33444331 1123566688889987654
No 58
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=90.30 E-value=0.1 Score=34.15 Aligned_cols=20 Identities=20% Similarity=0.702 Sum_probs=9.2
Q ss_pred ccccccccccchhhhhhccc
Q 006491 149 KCEKCSKRYAVQSDWKAHSK 168 (643)
Q Consensus 149 kC~~CgKsF~~ks~L~~H~r 168 (643)
.|.+|++.|..+..|+.|++
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 34444444444444444443
No 59
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=88.32 E-value=0.3 Score=51.99 Aligned_cols=49 Identities=20% Similarity=0.320 Sum_probs=37.4
Q ss_pred cccccccccccchhhhhhcccc-cC---------------------------CceeecC-CCCCcCChHHHHHHHHHh
Q 006491 148 WKCEKCSKRYAVQSDWKAHSKT-CG---------------------------TREYRCD-CGTLFSRRDSFITHRAFC 196 (643)
Q Consensus 148 fkC~~CgKsF~~ks~L~~H~rt-hg---------------------------eKpy~C~-CgK~F~~ks~L~~H~~~H 196 (643)
.+|-.|.+.+.....|..||++ |. .+.-.|- |...|.....|..|+.-+
T Consensus 280 v~CLfC~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~e~ 357 (423)
T KOG2482|consen 280 VVCLFCTNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMVED 357 (423)
T ss_pred eEEEeeccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhcccc
Confidence 4788888888888888888877 51 1223566 999999999999998754
No 60
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=88.26 E-value=0.18 Score=51.16 Aligned_cols=42 Identities=26% Similarity=0.437 Sum_probs=27.9
Q ss_pred eCCCCCccCCCCCCcccChhhHHhHhhhccCCcccccccccccccchhhhhhc
Q 006491 114 LCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAH 166 (643)
Q Consensus 114 ~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~geKpfkC~~CgKsF~~ks~L~~H 166 (643)
.|.+| ++.|.+..-|..|++..+ |+|.+|.|...+--.|..|
T Consensus 12 wcwyc-------nrefddekiliqhqkakh----fkchichkkl~sgpglsih 53 (341)
T KOG2893|consen 12 WCWYC-------NREFDDEKILIQHQKAKH----FKCHICHKKLFSGPGLSIH 53 (341)
T ss_pred eeeec-------ccccchhhhhhhhhhhcc----ceeeeehhhhccCCCceee
Confidence 46666 788888777777777543 7888887655444444444
No 61
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=86.06 E-value=0.77 Score=49.15 Aligned_cols=31 Identities=10% Similarity=0.218 Sum_probs=21.4
Q ss_pred Ccccccccccccccchhhhhhcccc-cCCcee
Q 006491 145 EKKWKCEKCSKRYAVQSDWKAHSKT-CGTREY 175 (643)
Q Consensus 145 eKpfkC~~CgKsF~~ks~L~~H~rt-hgeKpy 175 (643)
+..|.|++|++.=.+...|..|... |.+-.+
T Consensus 77 ~qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~ 108 (381)
T KOG1280|consen 77 PQSFTCPYCGIMGFTERQFGTHVLSQHPEAST 108 (381)
T ss_pred cccccCCcccccccchhHHHHHhhhcCcccCc
Confidence 3467888888777777777777766 655444
No 62
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=84.97 E-value=0.98 Score=49.02 Aligned_cols=49 Identities=20% Similarity=0.294 Sum_probs=40.5
Q ss_pred cccccccccccccchhhhhhcccc-cCC-----------------------ceeecC-CC---CCcCChHHHHHHHH
Q 006491 146 KKWKCEKCSKRYAVQSDWKAHSKT-CGT-----------------------REYRCD-CG---TLFSRRDSFITHRA 194 (643)
Q Consensus 146 KpfkC~~CgKsF~~ks~L~~H~rt-hge-----------------------Kpy~C~-Cg---K~F~~ks~L~~H~~ 194 (643)
-|-.|-.|++.|..-..-..||.. |+- .-|.|- |. +.|......+.||.
T Consensus 165 ~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~ 241 (390)
T KOG2785|consen 165 IPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMR 241 (390)
T ss_pred CCcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHh
Confidence 467799999999999888899987 631 237888 88 99999999999996
No 63
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=84.13 E-value=0.68 Score=30.01 Aligned_cols=16 Identities=25% Similarity=0.428 Sum_probs=7.1
Q ss_pred CCcccChhhHHhHhhhc
Q 006491 126 SRALGDLTGIKKHYSRK 142 (643)
Q Consensus 126 ~k~F~~~s~L~~H~r~H 142 (643)
..... ...|.+|+++|
T Consensus 7 ~y~t~-~~~l~~H~~~~ 22 (24)
T PF13909_consen 7 SYSTS-KSNLKRHLKRH 22 (24)
T ss_dssp S-EES-HHHHHHHHHHH
T ss_pred CCcCC-HHHHHHHHHhh
Confidence 44444 44555555543
No 64
>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=83.92 E-value=0.57 Score=32.99 Aligned_cols=24 Identities=33% Similarity=0.800 Sum_probs=21.5
Q ss_pred ccccCcccccccCchhHHhHhhhc
Q 006491 71 RFICEVCNKGFQREQNLQLHRRGH 94 (643)
Q Consensus 71 py~C~~CgK~F~~~~~L~~H~r~H 94 (643)
+|.|++|++.|.....+..|++..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~gk 26 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKGK 26 (35)
T ss_pred CeEccccCCccCCHHHHHHHHChH
Confidence 589999999999999999998654
No 65
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=83.21 E-value=0.97 Score=49.06 Aligned_cols=161 Identities=14% Similarity=0.190 Sum_probs=97.9
Q ss_pred ccccCcccccccCchhHHhHhhh--cCCCccccc-----------------------ccc-ccccCceeeCCCCCccCCC
Q 006491 71 RFICEVCNKGFQREQNLQLHRRG--HNLPWKLKQ-----------------------KTT-KEVKRKVYLCPEPTCVHHD 124 (643)
Q Consensus 71 py~C~~CgK~F~~~~~L~~H~r~--H~~~~~~~~-----------------------~~~-~~~~~k~y~C~~C~C~~~~ 124 (643)
-|.|..|...|.+...-+.|.++ |. +-+++ ... ....+.++.|..|
T Consensus 3 ~ftC~tC~v~F~~ad~Qr~HyKSdWHR--YNLKRkVA~lPPItaE~F~~k~~s~~~~~~~~~e~~~~~~~c~~c------ 74 (390)
T KOG2785|consen 3 GFTCNTCNVEFDDADEQRAHYKSDWHR--YNLKRKVASLPPITAEEFNEKVLSDDSEKEENLEEAESVVYCEAC------ 74 (390)
T ss_pred cceeeceeeeeccHHHHHHHhhhhHHH--hhHHhHhhcCCCcCHHHHhHHHhhhhhhhhhhhhhcccceehHHh------
Confidence 37899999999888888888765 32 11111 001 1345678999998
Q ss_pred CCCcccChhhHHhHhhhccC-----------------Ccccc-------------cccccccccchhhhhhcccc-----
Q 006491 125 PSRALGDLTGIKKHYSRKHG-----------------EKKWK-------------CEKCSKRYAVQSDWKAHSKT----- 169 (643)
Q Consensus 125 ~~k~F~~~s~L~~H~r~H~g-----------------eKpfk-------------C~~CgKsF~~ks~L~~H~rt----- 169 (643)
.|.|........|+..... .+... |..|-..+........+...
T Consensus 75 -~k~~~s~~a~~~hl~Sk~h~~~~~~~~r~~e~d~a~~~q~~~~~p~~l~~~~e~e~~~~E~~~~~d~~~e~~~dd~~Ed 153 (390)
T KOG2785|consen 75 -NKSFASPKAHENHLKSKKHVENLSNHQRSEEGDSAKISQLPSRRPSNLQNKGESELKWYEVDSDEDSSEEEEEDDEEED 153 (390)
T ss_pred -hccccChhhHHHHHHHhhcchhhhhhhccccccchhhhhccccCccccccCCCcccchhhcccccccchhhccCcchhh
Confidence 8999988888888753211 01222 33333333332222222221
Q ss_pred --------cCCceeecC-CCCCcCChHHHHHHHHHhhhhhhhhhhcCC----CccccCCC---CccCCcccc---ccccc
Q 006491 170 --------CGTREYRCD-CGTLFSRRDSFITHRAFCDALAQESARHQP----SLSAIGSH---LYASTNNMA---LGLSQ 230 (643)
Q Consensus 170 --------hgeKpy~C~-CgK~F~~ks~L~~H~~~Hh~~~~~~~~~~~----~~~~~~~k---~y~C~~~C~---~~fs~ 230 (643)
-..-|-.|- |.+.|..-..-.+||..+|........... .+...+++ -+.|-. |. +.|+.
T Consensus 154 i~~d~~~e~e~~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~-CN~~~~~f~s 232 (390)
T KOG2785|consen 154 IEEDGDDEDELIPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLF-CNELGRPFSS 232 (390)
T ss_pred hhhccchhcccCCcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEE-eccccCcccc
Confidence 012356788 999999999999999999876544332221 22333333 355555 77 88888
Q ss_pred cchhhhhhhhc
Q 006491 231 VGPQLSSIKDH 241 (643)
Q Consensus 231 ~s~L~~H~k~h 241 (643)
..+-..||...
T Consensus 233 leavr~HM~~K 243 (390)
T KOG2785|consen 233 LEAVRAHMRDK 243 (390)
T ss_pred cHHHHHHHhhc
Confidence 88889999765
No 66
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=81.74 E-value=1.1 Score=29.78 Aligned_cols=20 Identities=35% Similarity=0.908 Sum_probs=12.5
Q ss_pred ecC-CCCCcCChHHHHHHHHHh
Q 006491 176 RCD-CGTLFSRRDSFITHRAFC 196 (643)
Q Consensus 176 ~C~-CgK~F~~ks~L~~H~~~H 196 (643)
.|. |++.| ..+.|.+|++++
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~~C 24 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEKIC 24 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHHhc
Confidence 466 66666 456666666654
No 67
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=80.26 E-value=0.77 Score=46.75 Aligned_cols=51 Identities=20% Similarity=0.302 Sum_probs=42.0
Q ss_pred CCCCCCCCCCCCCCCChhhhhcCccccCCCCccccCcccccccCchhHHhH-hhhc
Q 006491 40 PPQKKKRNQPGTPNPDAEVIALSPKTLMATNRFICEVCNKGFQREQNLQLH-RRGH 94 (643)
Q Consensus 40 ~p~~~~c~~cg~~~~~~~~l~~h~k~h~~~kpy~C~~CgK~F~~~~~L~~H-~r~H 94 (643)
...+.+|..|...|.+.+.|..|++. |-|+|.+|-|..-+---|..| +.+|
T Consensus 7 k~~kpwcwycnrefddekiliqhqka----khfkchichkkl~sgpglsihcmqvh 58 (341)
T KOG2893|consen 7 KVDKPWCWYCNREFDDEKILIQHQKA----KHFKCHICHKKLFSGPGLSIHCMQVH 58 (341)
T ss_pred ccCCceeeecccccchhhhhhhhhhh----ccceeeeehhhhccCCCceeehhhhh
Confidence 34567899999999999999999876 569999999998888888888 4445
No 68
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=80.25 E-value=2.8 Score=38.33 Aligned_cols=47 Identities=15% Similarity=0.348 Sum_probs=32.3
Q ss_pred ccccccccccchhhhhhcccccCCceeecC-CCCCcCChHHHHHHHHHh
Q 006491 149 KCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CGTLFSRRDSFITHRAFC 196 (643)
Q Consensus 149 kC~~CgKsF~~ks~L~~H~rthgeKpy~C~-CgK~F~~ks~L~~H~~~H 196 (643)
.|--|.+.|........- +......|+|+ |...|-..-+.-.|..+|
T Consensus 57 ~C~~C~~~f~~~~~~~~~-~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh 104 (112)
T TIGR00622 57 FCFGCQGPFPKPPVSPFD-ELKDSHRYVCAVCKNVFCVDCDVFVHESLH 104 (112)
T ss_pred cccCcCCCCCCccccccc-ccccccceeCCCCCCccccccchhhhhhcc
Confidence 488888888754321100 01334579999 999998888888888777
No 69
>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=79.95 E-value=0.87 Score=32.04 Aligned_cols=21 Identities=24% Similarity=0.539 Sum_probs=10.7
Q ss_pred cccccccccccchhhhhhccc
Q 006491 148 WKCEKCSKRYAVQSDWKAHSK 168 (643)
Q Consensus 148 fkC~~CgKsF~~ks~L~~H~r 168 (643)
|.|++|++.|.....+..|++
T Consensus 4 ~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 4 FYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred eEccccCCccCCHHHHHHHHC
Confidence 445555555555555555544
No 70
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=76.32 E-value=1.1 Score=45.53 Aligned_cols=42 Identities=21% Similarity=0.508 Sum_probs=27.3
Q ss_pred Ccccccccccccccchhhhhhcccc-c----------CCce-----eecC-CCCCcCCh
Q 006491 145 EKKWKCEKCSKRYAVQSDWKAHSKT-C----------GTRE-----YRCD-CGTLFSRR 186 (643)
Q Consensus 145 eKpfkC~~CgKsF~~ks~L~~H~rt-h----------geKp-----y~C~-CgK~F~~k 186 (643)
+|.++|++|++.|.++.-+....|. . +..| .+|+ |+..|...
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 4567788888888777665555543 1 1222 4799 99888755
No 71
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=74.71 E-value=1.8 Score=28.79 Aligned_cols=21 Identities=24% Similarity=0.656 Sum_probs=17.7
Q ss_pred cccCcccccccCchhHHhHhhh
Q 006491 72 FICEVCNKGFQREQNLQLHRRG 93 (643)
Q Consensus 72 y~C~~CgK~F~~~~~L~~H~r~ 93 (643)
..|+.|++.| ....|..|++.
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 5799999999 67889999764
No 72
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=73.97 E-value=1.6 Score=45.01 Aligned_cols=47 Identities=23% Similarity=0.615 Sum_probs=33.2
Q ss_pred cccccccccccchhhhhhcccccCCceeecC-CCCCcCChHHHHHHHHHh
Q 006491 148 WKCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CGTLFSRRDSFITHRAFC 196 (643)
Q Consensus 148 fkC~~CgKsF~~ks~L~~H~rthgeKpy~C~-CgK~F~~ks~L~~H~~~H 196 (643)
|.|..|+.... +..+.+|+-.+...-|.|- |++.|.+ ..+..|...-
T Consensus 4 FtCnvCgEsvK-Kp~vekH~srCrn~~fSCIDC~k~F~~-~sYknH~kCI 51 (276)
T KOG2186|consen 4 FTCNVCGESVK-KPQVEKHMSRCRNAYFSCIDCGKTFER-VSYKNHTKCI 51 (276)
T ss_pred Eehhhhhhhcc-ccchHHHHHhccCCeeEEeeccccccc-chhhhhhhhc
Confidence 67888887654 4456778777444778887 8888877 6777776633
No 73
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=73.62 E-value=1.1 Score=48.08 Aligned_cols=56 Identities=38% Similarity=0.716 Sum_probs=43.9
Q ss_pred cCceeeCCCCCccCCCCCCcccChhhHHhHhhhcc-------------------CCcccccccccccccchhhhhhcccc
Q 006491 109 KRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKH-------------------GEKKWKCEKCSKRYAVQSDWKAHSKT 169 (643)
Q Consensus 109 ~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~-------------------geKpfkC~~CgKsF~~ks~L~~H~rt 169 (643)
..++|+|++..| .+.++....|+.|...-+ ..|+|+|++|.|+++....|+.|...
T Consensus 346 ~~~~~~~~vp~~-----~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~~~~ 420 (442)
T KOG4124|consen 346 VDKPYKCPVPNC-----DKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLKYHRTH 420 (442)
T ss_pred ecCCCCCCCCcc-----hhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCCceeeh
Confidence 357899999877 888988888888765422 25899999999999887777777654
No 74
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=73.49 E-value=2.2 Score=48.96 Aligned_cols=35 Identities=17% Similarity=0.439 Sum_probs=27.2
Q ss_pred CCCccccCcccccccCchhHHhHhhhcCCCcccccc
Q 006491 68 ATNRFICEVCNKGFQREQNLQLHRRGHNLPWKLKQK 103 (643)
Q Consensus 68 ~~kpy~C~~CgK~F~~~~~L~~H~r~H~~~~~~~~~ 103 (643)
...+-+|..||..|........|+..|- .|.++..
T Consensus 415 ~~~pnqC~~CG~R~~~~ee~sk~md~H~-dwh~r~n 449 (579)
T KOG2071|consen 415 KDSPNQCKSCGLRFDDSEERSKHMDIHD-DWHRRKN 449 (579)
T ss_pred cCCcchhcccccccccchhhhhHhhhhh-hhhhhhh
Confidence 4567899999999999999999998883 3444333
No 75
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=72.51 E-value=4.5 Score=37.01 Aligned_cols=78 Identities=13% Similarity=0.058 Sum_probs=50.3
Q ss_pred Ccccccccccccccchhhhhhcccc-cCC------------ceeecC-CCCCcCChHHHHHHHHHhhhhhhhhhhcCCCc
Q 006491 145 EKKWKCEKCSKRYAVQSDWKAHSKT-CGT------------REYRCD-CGTLFSRRDSFITHRAFCDALAQESARHQPSL 210 (643)
Q Consensus 145 eKpfkC~~CgKsF~~ks~L~~H~rt-hge------------Kpy~C~-CgK~F~~ks~L~~H~~~Hh~~~~~~~~~~~~~ 210 (643)
+-|..|++|+-+.....+|.+-... -.. +...|- |.+.|....... ..
T Consensus 13 ~LP~~CpiCgLtLVss~HLARSyHHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~------------------~~ 74 (112)
T TIGR00622 13 ELPVECPICGLTLILSTHLARSYHHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSP------------------FD 74 (112)
T ss_pred CCCCcCCcCCCEEeccchHHHhhhccCCCcccccccccccCCCCcccCcCCCCCCccccc------------------cc
Confidence 4577888888877777766543221 111 122498 999998653111 00
Q ss_pred cccCCCCccCCccccccccccchhhhhhhhc
Q 006491 211 SAIGSHLYASTNNMALGLSQVGPQLSSIKDH 241 (643)
Q Consensus 211 ~~~~~k~y~C~~~C~~~fs~~s~L~~H~k~h 241 (643)
....+..|.|+. |..-|--.-+...|...|
T Consensus 75 ~~~~~~~y~C~~-C~~~FC~dCD~fiHe~Lh 104 (112)
T TIGR00622 75 ELKDSHRYVCAV-CKNVFCVDCDVFVHESLH 104 (112)
T ss_pred ccccccceeCCC-CCCccccccchhhhhhcc
Confidence 023455899999 999999888888888766
No 76
>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=71.55 E-value=2.7 Score=38.21 Aligned_cols=36 Identities=19% Similarity=0.317 Sum_probs=29.1
Q ss_pred CCCCCCCCCCCCCCCCCChhhhhcCccccCCCCccccCcccccccCc
Q 006491 38 VPPPQKKKRNQPGTPNPDAEVIALSPKTLMATNRFICEVCNKGFQRE 84 (643)
Q Consensus 38 ~~~p~~~~c~~cg~~~~~~~~l~~h~k~h~~~kpy~C~~CgK~F~~~ 84 (643)
+..-.|+.|..|++.|++-. +.|..|+.|+..|.-.
T Consensus 4 pelGtKR~Cp~CG~kFYDLn-----------k~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 4 PELGTKRTCPSCGAKFYDLN-----------KDPIVCPKCGTEFPPE 39 (108)
T ss_pred cccCCcccCCCCcchhccCC-----------CCCccCCCCCCccCcc
Confidence 34557889999999999754 3678899999999776
No 77
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=69.79 E-value=1.1 Score=44.76 Aligned_cols=77 Identities=21% Similarity=0.410 Sum_probs=44.3
Q ss_pred CccccCc--ccccccCchhHHhHhhhcCCCccccccccccccCceeeCCCCCccCCCCCCcccChhhHHhHhhh-c----
Q 006491 70 NRFICEV--CNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSR-K---- 142 (643)
Q Consensus 70 kpy~C~~--CgK~F~~~~~L~~H~r~H~~~~~~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~-H---- 142 (643)
+.|.|.+ |-..|.....+..|..+.+ --.|.+| .|.|.+...|..|+.. |
T Consensus 78 ~~~~cqvagc~~~~d~lD~~E~hY~~~h----------------~~sCs~C-------~r~~Pt~hLLd~HI~E~HDs~F 134 (253)
T KOG4173|consen 78 PAFACQVAGCCQVFDALDDYEHHYHTLH----------------GNSCSFC-------KRAFPTGHLLDAHILEWHDSLF 134 (253)
T ss_pred ccccccccchHHHHhhhhhHHHhhhhcc----------------cchhHHH-------HHhCCchhhhhHHHHHHHHHHH
Confidence 4466665 5566655555555543321 1246666 6667666666666642 2
Q ss_pred -----cCCcccccc--cccccccchhhhhhcccc
Q 006491 143 -----HGEKKWKCE--KCSKRYAVQSDWKAHSKT 169 (643)
Q Consensus 143 -----~geKpfkC~--~CgKsF~~ks~L~~H~rt 169 (643)
.+..-|.|- .|...|.+...-+.|+..
T Consensus 135 qa~veRG~dMy~ClvEgCt~KFkT~r~RkdH~I~ 168 (253)
T KOG4173|consen 135 QALVERGQDMYQCLVEGCTEKFKTSRDRKDHMIR 168 (253)
T ss_pred HHHHHcCccHHHHHHHhhhhhhhhhhhhhhHHHH
Confidence 144456673 377777777777777655
No 78
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=66.35 E-value=4.9 Score=42.60 Aligned_cols=47 Identities=15% Similarity=0.434 Sum_probs=33.3
Q ss_pred ccccccccccchhhhhhcccccCCceeecC-CCCCcCChHHHHHHHHHh
Q 006491 149 KCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CGTLFSRRDSFITHRAFC 196 (643)
Q Consensus 149 kC~~CgKsF~~ks~L~~H~rthgeKpy~C~-CgK~F~~ks~L~~H~~~H 196 (643)
.|-.|--.|.....-..- +.+....|.|+ |...|-..-..-.|...|
T Consensus 364 ~Cf~CQ~~fp~~~~~~~~-~~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 364 HCFVCQGPFPKPPVSPFD-ESTSSGRYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred cceeccCCCCCCCCCccc-ccccccceechhhhhhhhhhhHHHHHHHHh
Confidence 488888888754322111 11445679999 999999988888888877
No 79
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=65.86 E-value=2.6 Score=40.76 Aligned_cols=46 Identities=17% Similarity=0.204 Sum_probs=28.0
Q ss_pred CCCCCCCCCCCChhhhhcCccccCCCCccccCcccccccCchhHHh
Q 006491 44 KKRNQPGTPNPDAEVIALSPKTLMATNRFICEVCNKGFQREQNLQL 89 (643)
Q Consensus 44 ~~c~~cg~~~~~~~~l~~h~k~h~~~kpy~C~~CgK~F~~~~~L~~ 89 (643)
.+|+.|+.+......-..-.....-.+.|+|+.|+++|.+...+..
T Consensus 1 m~cp~c~~~~~~~~~s~~~~~~~~~~~~~~c~~c~~~f~~~e~~~~ 46 (154)
T PRK00464 1 MRCPFCGHPDTRVIDSRPAEDGNAIRRRRECLACGKRFTTFERVEL 46 (154)
T ss_pred CcCCCCCCCCCEeEeccccCCCCceeeeeeccccCCcceEeEeccC
Confidence 3799999877433222211122222345999999999988766543
No 80
>KOG4377 consensus Zn-finger protein [General function prediction only]
Probab=65.66 E-value=15 Score=40.43 Aligned_cols=124 Identities=17% Similarity=0.274 Sum_probs=69.3
Q ss_pred ccCceeeCCCCCccCCCCCCcccChhhHHhHhhhccCCc------------ccccc--cccccccchhhhhhccccc---
Q 006491 108 VKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEK------------KWKCE--KCSKRYAVQSDWKAHSKTC--- 170 (643)
Q Consensus 108 ~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~geK------------pfkC~--~CgKsF~~ks~L~~H~rth--- 170 (643)
..+.-|.|-...| ...+..+..+.+|..+|...+ .|.|. .|.| .-++...|-..|
T Consensus 267 ~~rEhyhcl~e~C-----~ykr~~k~DvirH~~~hkkrdnsL~dgf~rfs~syhC~~~~C~k---sTsdV~~h~nFht~~ 338 (480)
T KOG4377|consen 267 AGREHYHCLNEYC-----FYKRGQKNDVIRHVEIHKKRDNSLIDGFHRFSNSYHCTGQICEK---STSDVLLHDNFHTDK 338 (480)
T ss_pred ccchhhcccCccc-----cccccchhhhHHHHHHHhhcccccccchhhcCccchhhhcccCc---ccccccccCcccccc
Confidence 3566788866555 555555889999999886421 25674 5988 334444554433
Q ss_pred ---CC--ceeecC-CC--CCcCChHHHHHHHHHhhhhhhhhhhcCCCccccCC------------CCccCC-cccccccc
Q 006491 171 ---GT--REYRCD-CG--TLFSRRDSFITHRAFCDALAQESARHQPSLSAIGS------------HLYAST-NNMALGLS 229 (643)
Q Consensus 171 ---ge--Kpy~C~-Cg--K~F~~ks~L~~H~~~Hh~~~~~~~~~~~~~~~~~~------------k~y~C~-~~C~~~fs 229 (643)
|. --|.|. |+ ..|+ ...|...|-+....+..-..+...... ..+-|. ..|...+.
T Consensus 339 ~n~GfrrthfhC~r~gCTdtfK----~~khk~yh~kdda~~~dGfkkf~k~e~cay~gCkys~~cnhfhc~r~Gc~~tl~ 414 (480)
T KOG4377|consen 339 RNNGFRRTHFHCQRIGCTDTFK----DSKHKPYHYKDDAGEIDGFKKFFKDENCAYTGCKYSGICNHFHCDRLGCEATLY 414 (480)
T ss_pred ccCceecceeEEeccCCccccc----cccccccccCcchhhhhhhhhhhccccCCccCcccccceeeeeecccCCceEEE
Confidence 22 247786 54 6665 445555543222221111111111111 123332 34788889
Q ss_pred ccchhhhhhhhccC
Q 006491 230 QVGPQLSSIKDHHQ 243 (643)
Q Consensus 230 ~~s~L~~H~k~hh~ 243 (643)
..+.+..|.++|..
T Consensus 415 s~sqm~shkrkheR 428 (480)
T KOG4377|consen 415 SVSQMASHKRKHER 428 (480)
T ss_pred ehhhhhhhhhhhhh
Confidence 99999999999843
No 81
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=65.38 E-value=2.8 Score=42.64 Aligned_cols=25 Identities=24% Similarity=0.462 Sum_probs=19.8
Q ss_pred CCccccCcccccccCchhHHhHhhh
Q 006491 69 TNRFICEVCNKGFQREQNLQLHRRG 93 (643)
Q Consensus 69 ~kpy~C~~CgK~F~~~~~L~~H~r~ 93 (643)
+|.++|++|++.|.++.-+....|.
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r~ 27 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIRV 27 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCceE
Confidence 3668999999999988776666554
No 82
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=64.77 E-value=3.5 Score=32.91 Aligned_cols=28 Identities=36% Similarity=0.738 Sum_probs=20.2
Q ss_pred cCCceeecC-CCCCcCChHHHHHHHHHhh
Q 006491 170 CGTREYRCD-CGTLFSRRDSFITHRAFCD 197 (643)
Q Consensus 170 hgeKpy~C~-CgK~F~~ks~L~~H~~~Hh 197 (643)
-||.-++|+ |++.|.+...+.+|....|
T Consensus 13 DGE~~lrCPRC~~~FR~~K~Y~RHVNKaH 41 (65)
T COG4049 13 DGEEFLRCPRCGMVFRRRKDYIRHVNKAH 41 (65)
T ss_pred CCceeeeCCchhHHHHHhHHHHHHhhHHh
Confidence 466777787 8888888777888775443
No 83
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=64.47 E-value=3.2 Score=40.16 Aligned_cols=16 Identities=25% Similarity=0.586 Sum_probs=10.3
Q ss_pred cccccccccccchhhh
Q 006491 148 WKCEKCSKRYAVQSDW 163 (643)
Q Consensus 148 fkC~~CgKsF~~ks~L 163 (643)
+.|+.|+++|.....+
T Consensus 29 ~~c~~c~~~f~~~e~~ 44 (154)
T PRK00464 29 RECLACGKRFTTFERV 44 (154)
T ss_pred eeccccCCcceEeEec
Confidence 6777777777655443
No 84
>KOG4407 consensus Predicted Rho GTPase-activating protein [General function prediction only]
Probab=63.51 E-value=2.4 Score=52.37 Aligned_cols=13 Identities=38% Similarity=0.679 Sum_probs=7.2
Q ss_pred CCccccccchhhh
Q 006491 286 STPFFMQESNQNY 298 (643)
Q Consensus 286 s~~~~~qqqqQQq 298 (643)
+.||+.|||||||
T Consensus 318 S~P~~~~~~Q~q~ 330 (1973)
T KOG4407|consen 318 SQPFYPQQQQQQQ 330 (1973)
T ss_pred cccCchhhhhhhh
Confidence 4566666554443
No 85
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=60.85 E-value=2.6 Score=33.63 Aligned_cols=26 Identities=23% Similarity=0.621 Sum_probs=17.1
Q ss_pred CCcccccccccccccchhhhhhcccc
Q 006491 144 GEKKWKCEKCSKRYAVQSDWKAHSKT 169 (643)
Q Consensus 144 geKpfkC~~CgKsF~~ks~L~~H~rt 169 (643)
+|.-++|+.|++.|....++.+|...
T Consensus 14 GE~~lrCPRC~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 14 GEEFLRCPRCGMVFRRRKDYIRHVNK 39 (65)
T ss_pred CceeeeCCchhHHHHHhHHHHHHhhH
Confidence 45556677777777766666666655
No 86
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=60.44 E-value=2 Score=45.49 Aligned_cols=52 Identities=15% Similarity=0.300 Sum_probs=23.5
Q ss_pred cCceeeCCCCCccCCCCCCcccChhhHHhHhhhccCCcccccccccccccchhhhhhc-ccc-cCCceeecC-CCCCc
Q 006491 109 KRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAH-SKT-CGTREYRCD-CGTLF 183 (643)
Q Consensus 109 ~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~geKpfkC~~CgKsF~~ks~L~~H-~rt-hgeKpy~C~-CgK~F 183 (643)
+.|...|..|+. .+. -+..+|+.|+..-..+ |... ... -+.+-+.|+ |+.-+
T Consensus 194 G~R~L~Cs~C~t-------~W~--------------~~R~~Cp~Cg~~~~~~--l~~~~~e~~~~~rve~C~~C~~Yl 248 (290)
T PF04216_consen 194 GKRYLHCSLCGT-------EWR--------------FVRIKCPYCGNTDHEK--LEYFTVEGEPAYRVEVCESCGSYL 248 (290)
T ss_dssp -EEEEEETTT---------EEE----------------TTS-TTT---SS-E--EE--------SEEEEEETTTTEEE
T ss_pred ccEEEEcCCCCC-------eee--------------ecCCCCcCCCCCCCcc--eeeEecCCCCcEEEEECCcccchH
Confidence 568888999832 221 1245799998753322 2221 111 455778998 97443
No 87
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=57.69 E-value=11 Score=40.51 Aligned_cols=51 Identities=18% Similarity=0.399 Sum_probs=30.0
Q ss_pred cCceeeCCCCCccCCCCCCcccChhhHHhHhhhccCCcccccccccccccchhhhhhcccc---cCCceeecC-CCCCcC
Q 006491 109 KRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAHSKT---CGTREYRCD-CGTLFS 184 (643)
Q Consensus 109 ~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~geKpfkC~~CgKsF~~ks~L~~H~rt---hgeKpy~C~-CgK~F~ 184 (643)
+.|...|..|++ ...| +..+|+.|+.. ..|..+... -..|-+.|+ |+.-++
T Consensus 209 G~RyL~CslC~t-----eW~~----------------~R~~C~~Cg~~----~~l~y~~~~~~~~~~r~e~C~~C~~YlK 263 (309)
T PRK03564 209 GLRYLHCNLCES-----EWHV----------------VRVKCSNCEQS----GKLHYWSLDSEQAAVKAESCGDCGTYLK 263 (309)
T ss_pred CceEEEcCCCCC-----cccc----------------cCccCCCCCCC----CceeeeeecCCCcceEeeecccccccce
Confidence 678889999844 2222 23589999862 233333211 234778898 875443
No 88
>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=56.88 E-value=7.4 Score=36.30 Aligned_cols=39 Identities=15% Similarity=0.152 Sum_probs=30.0
Q ss_pred CCCCCCCCCCCCCCCCChhhhhcCccccCCCCccccCcccccccCchhHH
Q 006491 39 PPPQKKKRNQPGTPNPDAEVIALSPKTLMATNRFICEVCNKGFQREQNLQ 88 (643)
Q Consensus 39 ~~p~~~~c~~cg~~~~~~~~l~~h~k~h~~~kpy~C~~CgK~F~~~~~L~ 88 (643)
..-.|+.|..|++.|++-. +.|..|+.|+..|.....++
T Consensus 5 elGtKr~Cp~cg~kFYDLn-----------k~p~vcP~cg~~~~~~~~~~ 43 (129)
T TIGR02300 5 DLGTKRICPNTGSKFYDLN-----------RRPAVSPYTGEQFPPEEALK 43 (129)
T ss_pred hhCccccCCCcCccccccC-----------CCCccCCCcCCccCcchhhc
Confidence 3456889999999999753 36789999999987664444
No 89
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=56.82 E-value=10 Score=34.05 Aligned_cols=25 Identities=24% Similarity=0.551 Sum_probs=22.2
Q ss_pred eeec----C-CCCCcCChHHHHHHHHHhhh
Q 006491 174 EYRC----D-CGTLFSRRDSFITHRAFCDA 198 (643)
Q Consensus 174 py~C----~-CgK~F~~ks~L~~H~~~Hh~ 198 (643)
-|.| . |+..+.....+.+|.+.+|+
T Consensus 80 G~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 80 GYRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CeeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 4899 7 99999999999999998763
No 90
>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=56.26 E-value=7.7 Score=27.46 Aligned_cols=10 Identities=30% Similarity=1.076 Sum_probs=7.5
Q ss_pred cccccccccc
Q 006491 146 KKWKCEKCSK 155 (643)
Q Consensus 146 KpfkC~~CgK 155 (643)
.+++|++|+.
T Consensus 16 ~~~~CP~Cg~ 25 (33)
T cd00350 16 APWVCPVCGA 25 (33)
T ss_pred CCCcCcCCCC
Confidence 6778888865
No 91
>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=55.21 E-value=2.9 Score=42.58 Aligned_cols=33 Identities=24% Similarity=0.381 Sum_probs=23.6
Q ss_pred cCCceeecC-CCCCcCChHHHHHHHHHhhhhhhh
Q 006491 170 CGTREYRCD-CGTLFSRRDSFITHRAFCDALAQE 202 (643)
Q Consensus 170 hgeKpy~C~-CgK~F~~ks~L~~H~~~Hh~~~~~ 202 (643)
..+..|.|. |+|.|+-..-.++|+..-|....+
T Consensus 73 ~~~~K~~C~lc~KlFkg~eFV~KHI~nKH~e~ve 106 (214)
T PF04959_consen 73 EDEDKWRCPLCGKLFKGPEFVRKHIFNKHPEKVE 106 (214)
T ss_dssp SSSEEEEE-SSS-EESSHHHHHHHHHHH-HHHHH
T ss_pred HcCCEECCCCCCcccCChHHHHHHHhhcCHHHHH
Confidence 456678998 999999999999998877765544
No 92
>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=54.30 E-value=7.3 Score=35.46 Aligned_cols=15 Identities=20% Similarity=0.629 Sum_probs=8.6
Q ss_pred cccccccccccccch
Q 006491 146 KKWKCEKCSKRYAVQ 160 (643)
Q Consensus 146 KpfkC~~CgKsF~~k 160 (643)
.|..|++|+..|...
T Consensus 25 ~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 25 DPIVCPKCGTEFPPE 39 (108)
T ss_pred CCccCCCCCCccCcc
Confidence 455666666665544
No 93
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=48.98 E-value=8.6 Score=45.93 Aligned_cols=12 Identities=17% Similarity=0.523 Sum_probs=9.3
Q ss_pred Cccccccccccc
Q 006491 145 EKKWKCEKCSKR 156 (643)
Q Consensus 145 eKpfkC~~CgKs 156 (643)
..|..|+.|+..
T Consensus 473 ~~p~~Cp~Cgs~ 484 (730)
T COG1198 473 PIPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCCC
Confidence 567888888874
No 94
>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=46.37 E-value=15 Score=37.53 Aligned_cols=30 Identities=23% Similarity=0.488 Sum_probs=23.3
Q ss_pred CCcccccccccccccchhhhhhcccc-cCCc
Q 006491 144 GEKKWKCEKCSKRYAVQSDWKAHSKT-CGTR 173 (643)
Q Consensus 144 geKpfkC~~CgKsF~~ks~L~~H~rt-hgeK 173 (643)
.+.+|.|..|+|.|.-..-+++|+.. |.++
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~nKH~e~ 104 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFNKHPEK 104 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHHH-HHH
T ss_pred cCCEECCCCCCcccCChHHHHHHHhhcCHHH
Confidence 46689999999999999999999988 7653
No 95
>PF02166 Androgen_recep: Androgen receptor; InterPro: IPR001103 Steroid or nuclear hormone receptors (NRs) constitute an important super-family of transcription regulators that are involved in diverse physiological functions, including control of embryonic development, cell differentiation and homeostasis. Members include the steroid hormone receptors and receptors for thyroid hormone, retinoids and 1,25-dihydroxy-vitamin D3. The proteins function as dimeric molecules in the nucleus to regulate the transcription of target genes in a ligand-responsive manner [, ]. NRs are extremely important in medical research, a large number of them being implicated in diseases such as cancer, diabetes and hormone resistance syndromes. Many do not yet have a defined ligand and are accordingly termed "orphan" receptors. More than 300 NRs have been described to date and a new system has recently been introduced in an attempt to rationalise the increasingly complex set of names used to describe superfamily members. The androgen receptor (AR) consists of 3 functional and structural domains: an N-terminal (modulatory) domain; a DNA binding domain (IPR001628 from INTERPRO) that mediates specific binding to target DNA sequences (ligand-responsive elements); and a hormone binding domain. The N-terminal domain (NTD) is unique to the androgen receptors and spans approximately the first 530 residues; the highly-conserved DNA-binding domain is smaller (around 65 residues) and occupies the central portion of the protein; and the hormone ligand binding domain (LBD) lies at the receptor C terminus. In the absence of ligand, steroid hormone receptors are thought to be weakly associated with nuclear components; hormone binding greatly increases receptor affinity. The LBDs of steroid hormone receptors fold into 12 helices that form a ligand-binding pocket. When an agonist is bound, helix 12 folds over the pocket to enclose the ligand []. When an antagonist is unbound, helix 12 is positioned away from the pocket in a way that interferes with the binding of coactivators to a groove in the hormone-binding domain formed after ligand binding. In AR, ligand binding that induces folding of helix 12 to overlie the pocket discloses a groove that binds a region of the NTD. Coactivator molecules can also bind to this groove, but the predominant site for coactivator binding to AR is in the NTD. AR ligand resides in a pocket and primarily contacts helices 4, 5, and 10. The DNA-binding region includes eight cysteine residues that form two coordination complexes, each composed of four cysteines and a Zn2+ ion. These two zinc fingers form the structure that binds to the major groove of DNA. The second zinc finger stabilises the binding complex by hydrophobic interactions with the first finger and contributes to specificity of receptor DNA binding. It is also necessary for receptor dimerisation that occurs during DNA binding Defects in the androgen receptor cause testicular feminisation syndrome, androgen insensibility syndrome (AIS) [, ]. AIS may be complete (CAIS), where external genitalia are phenotypically female; partial (PAIS), where genitalia are substantively ambiguous; or mild (MAIS), where external genitalia are normal male, or nearly so. Defects in the receptor also cause X-linked spinal and bulbar muscular atrophy (also known as Kennedy's disease).; GO: 0003677 DNA binding, 0004882 androgen receptor activity, 0005496 steroid binding, 0006355 regulation of transcription, DNA-dependent, 0030521 androgen receptor signaling pathway, 0005634 nucleus; PDB: 1XOW_B 2Q7K_B 2Q7I_B.
Probab=45.27 E-value=7 Score=41.91 Aligned_cols=7 Identities=14% Similarity=0.662 Sum_probs=0.0
Q ss_pred ccccccc
Q 006491 319 GLMQFAD 325 (643)
Q Consensus 319 ~l~q~~~ 325 (643)
|++-|-+
T Consensus 80 gylalee 86 (423)
T PF02166_consen 80 GYLALEE 86 (423)
T ss_dssp -------
T ss_pred ccccccc
Confidence 5555555
No 96
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=43.75 E-value=19 Score=38.66 Aligned_cols=50 Identities=16% Similarity=0.292 Sum_probs=28.2
Q ss_pred cCceeeCCCCCccCCCCCCcccChhhHHhHhhhccCCcccccccccccccchhhhhhccccc-----CCceeecC-CCCC
Q 006491 109 KRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAHSKTC-----GTREYRCD-CGTL 182 (643)
Q Consensus 109 ~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~geKpfkC~~CgKsF~~ks~L~~H~rth-----geKpy~C~-CgK~ 182 (643)
+.|...|..|.+ ...| +..+|+.|+.. ..|....-.. +.|-..|+ |+.-
T Consensus 207 G~RyL~CslC~t-----eW~~----------------~R~~C~~Cg~~----~~l~y~~~e~~~~~~~~r~e~C~~C~~Y 261 (305)
T TIGR01562 207 GLRYLSCSLCAT-----EWHY----------------VRVKCSHCEES----KHLAYLSLEHDAEKAVLKAETCDSCQGY 261 (305)
T ss_pred CceEEEcCCCCC-----cccc----------------cCccCCCCCCC----CceeeEeecCCCCCcceEEeeccccccc
Confidence 677888888843 2222 23589999874 2233222112 23667888 8643
Q ss_pred c
Q 006491 183 F 183 (643)
Q Consensus 183 F 183 (643)
.
T Consensus 262 l 262 (305)
T TIGR01562 262 L 262 (305)
T ss_pred h
Confidence 3
No 97
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=43.20 E-value=23 Score=33.77 Aligned_cols=14 Identities=29% Similarity=0.914 Sum_probs=7.4
Q ss_pred ccccccccccccch
Q 006491 147 KWKCEKCSKRYAVQ 160 (643)
Q Consensus 147 pfkC~~CgKsF~~k 160 (643)
-|.|+.|++.|...
T Consensus 99 ~Y~Cp~C~~~y~~~ 112 (147)
T smart00531 99 YYKCPNCQSKYTFL 112 (147)
T ss_pred EEECcCCCCEeeHH
Confidence 45555555555543
No 98
>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=42.32 E-value=16 Score=27.23 Aligned_cols=26 Identities=23% Similarity=0.461 Sum_probs=17.3
Q ss_pred CCCccccCcccccccCc----hhHHhHhhh
Q 006491 68 ATNRFICEVCNKGFQRE----QNLQLHRRG 93 (643)
Q Consensus 68 ~~kpy~C~~CgK~F~~~----~~L~~H~r~ 93 (643)
.....+|..|++.+... .+|..|++.
T Consensus 13 ~~~~a~C~~C~~~~~~~~~~ts~l~~HL~~ 42 (45)
T PF02892_consen 13 DKKKAKCKYCGKVIKYSSGGTSNLKRHLKK 42 (45)
T ss_dssp CSS-EEETTTTEE-----SSTHHHHHHHHH
T ss_pred CcCeEEeCCCCeEEeeCCCcHHHHHHhhhh
Confidence 45678999999998874 789999843
No 99
>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=41.71 E-value=16 Score=34.11 Aligned_cols=12 Identities=0% Similarity=-0.009 Sum_probs=5.6
Q ss_pred cccccccccccc
Q 006491 147 KWKCEKCSKRYA 158 (643)
Q Consensus 147 pfkC~~CgKsF~ 158 (643)
|..|++|+..|.
T Consensus 26 p~vcP~cg~~~~ 37 (129)
T TIGR02300 26 PAVSPYTGEQFP 37 (129)
T ss_pred CccCCCcCCccC
Confidence 444444444443
No 100
>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=41.49 E-value=18 Score=26.00 Aligned_cols=11 Identities=27% Similarity=0.990 Sum_probs=5.1
Q ss_pred ccccccccccc
Q 006491 149 KCEKCSKRYAV 159 (643)
Q Consensus 149 kC~~CgKsF~~ 159 (643)
+|+.|+..|.-
T Consensus 4 ~CP~C~~~~~v 14 (38)
T TIGR02098 4 QCPNCKTSFRV 14 (38)
T ss_pred ECCCCCCEEEe
Confidence 44555544443
No 101
>KOG4377 consensus Zn-finger protein [General function prediction only]
Probab=41.22 E-value=26 Score=38.71 Aligned_cols=121 Identities=14% Similarity=0.293 Sum_probs=68.8
Q ss_pred Ccccc--CcccccccCchhHHhHhhhcCCCccccccccccccCceeeCCCCCccCCCCCCcccChhhHHhHhhhccCC--
Q 006491 70 NRFIC--EVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGE-- 145 (643)
Q Consensus 70 kpy~C--~~CgK~F~~~~~L~~H~r~H~~~~~~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~ge-- 145 (643)
.-|.| +.|...+..+..+.+|...|.+.......... .-...|.|..-.| .+ ..+....|-.-|+..
T Consensus 270 Ehyhcl~e~C~ykr~~k~DvirH~~~hkkrdnsL~dgf~-rfs~syhC~~~~C-----~k---sTsdV~~h~nFht~~~n 340 (480)
T KOG4377|consen 270 EHYHCLNEYCFYKRGQKNDVIRHVEIHKKRDNSLIDGFH-RFSNSYHCTGQIC-----EK---STSDVLLHDNFHTDKRN 340 (480)
T ss_pred hhhcccCccccccccchhhhHHHHHHHhhcccccccchh-hcCccchhhhccc-----Cc---ccccccccCcccccccc
Confidence 34666 45887777788999998888422111111111 1122356655444 66 344555666666431
Q ss_pred -----ccccccccc--ccccchhhhhhccccc-----C--------C------------ceeecC---CCCCcCChHHHH
Q 006491 146 -----KKWKCEKCS--KRYAVQSDWKAHSKTC-----G--------T------------REYRCD---CGTLFSRRDSFI 190 (643)
Q Consensus 146 -----KpfkC~~Cg--KsF~~ks~L~~H~rth-----g--------e------------Kpy~C~---CgK~F~~ks~L~ 190 (643)
.-|.|..|+ -+|+....-..|.+-+ | + .-|.|. |+.+|...+.+.
T Consensus 341 ~GfrrthfhC~r~gCTdtfK~~khk~yh~kdda~~~dGfkkf~k~e~cay~gCkys~~cnhfhc~r~Gc~~tl~s~sqm~ 420 (480)
T KOG4377|consen 341 NGFRRTHFHCQRIGCTDTFKDSKHKPYHYKDDAGEIDGFKKFFKDENCAYTGCKYSGICNHFHCDRLGCEATLYSVSQMA 420 (480)
T ss_pred CceecceeEEeccCCccccccccccccccCcchhhhhhhhhhhccccCCccCcccccceeeeeecccCCceEEEehhhhh
Confidence 236787766 4444332223333321 0 0 125685 999999999999
Q ss_pred HHHHHhhhh
Q 006491 191 THRAFCDAL 199 (643)
Q Consensus 191 ~H~~~Hh~~ 199 (643)
.|.|.|...
T Consensus 421 shkrkheRq 429 (480)
T KOG4377|consen 421 SHKRKHERQ 429 (480)
T ss_pred hhhhhhhhh
Confidence 999998654
No 102
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=39.68 E-value=18 Score=35.39 Aligned_cols=25 Identities=32% Similarity=0.662 Sum_probs=18.2
Q ss_pred ceeeCCCCCccCCCCCCcccChhhHHhHhhhccCCcccccccccc
Q 006491 111 KVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSK 155 (643)
Q Consensus 111 k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~geKpfkC~~CgK 155 (643)
+.|.|++| |. +|.++-|.+|++|+-
T Consensus 133 ~~~vC~vC-------Gy-------------~~~ge~P~~CPiCga 157 (166)
T COG1592 133 KVWVCPVC-------GY-------------THEGEAPEVCPICGA 157 (166)
T ss_pred CEEEcCCC-------CC-------------cccCCCCCcCCCCCC
Confidence 37899998 43 334577889999983
No 103
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=39.55 E-value=25 Score=37.53 Aligned_cols=57 Identities=21% Similarity=0.412 Sum_probs=41.3
Q ss_pred CCCCCCCCCCCCCCCCCCCChhhhhcCccccCCCCccccCcccccccCchhHHhHhhhc
Q 006491 36 PPVPPPQKKKRNQPGTPNPDAEVIALSPKTLMATNRFICEVCNKGFQREQNLQLHRRGH 94 (643)
Q Consensus 36 ~~~~~p~~~~c~~cg~~~~~~~~l~~h~k~h~~~kpy~C~~CgK~F~~~~~L~~H~r~H 94 (643)
++...|+...|-.|.-+|+....-..-. .+..-+|+|+.|...|......-.|...|
T Consensus 355 p~~~~~ks~~Cf~CQ~~fp~~~~~~~~~--~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 355 PEGTNPKSTHCFVCQGPFPKPPVSPFDE--STSSGRYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred cCCCCCCCccceeccCCCCCCCCCcccc--cccccceechhhhhhhhhhhHHHHHHHHh
Confidence 3445566677889988888664433222 22335799999999999999999998877
No 104
>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=39.06 E-value=30 Score=31.05 Aligned_cols=24 Identities=17% Similarity=0.501 Sum_probs=21.7
Q ss_pred ccc----ccccccccchhhhhhcccc-cC
Q 006491 148 WKC----EKCSKRYAVQSDWKAHSKT-CG 171 (643)
Q Consensus 148 fkC----~~CgKsF~~ks~L~~H~rt-hg 171 (643)
|.| ..|++.+.+...+.+|.+. |+
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 789 9999999999999999987 64
No 105
>PRK04023 DNA polymerase II large subunit; Validated
Probab=38.58 E-value=33 Score=42.19 Aligned_cols=14 Identities=29% Similarity=0.598 Sum_probs=9.9
Q ss_pred CCCCccccCccccc
Q 006491 67 MATNRFICEVCNKG 80 (643)
Q Consensus 67 ~~~kpy~C~~CgK~ 80 (643)
.......|+.|++.
T Consensus 622 VEVg~RfCpsCG~~ 635 (1121)
T PRK04023 622 VEIGRRKCPSCGKE 635 (1121)
T ss_pred ecccCccCCCCCCc
Confidence 33456789999876
No 106
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=37.44 E-value=17 Score=37.71 Aligned_cols=49 Identities=16% Similarity=0.414 Sum_probs=28.6
Q ss_pred cccCcccccccCchhHHhHhhhcCCCccccccccccccCceeeCCCCCccCCCCCCcccChhhHHhHhhhcc
Q 006491 72 FICEVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKH 143 (643)
Q Consensus 72 y~C~~CgK~F~~~~~L~~H~r~H~~~~~~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~ 143 (643)
|.|.+|+.... +..|.+|+-..+ ...|.|-.| ++.|.. ..++.|..--+
T Consensus 4 FtCnvCgEsvK-Kp~vekH~srCr--------------n~~fSCIDC-------~k~F~~-~sYknH~kCIT 52 (276)
T KOG2186|consen 4 FTCNVCGESVK-KPQVEKHMSRCR--------------NAYFSCIDC-------GKTFER-VSYKNHTKCIT 52 (276)
T ss_pred Eehhhhhhhcc-ccchHHHHHhcc--------------CCeeEEeec-------cccccc-chhhhhhhhcc
Confidence 66777777653 445556665542 255666655 666666 45556655444
No 107
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=36.84 E-value=25 Score=25.43 Aligned_cols=12 Identities=25% Similarity=1.046 Sum_probs=5.7
Q ss_pred ccccccccccch
Q 006491 149 KCEKCSKRYAVQ 160 (643)
Q Consensus 149 kC~~CgKsF~~k 160 (643)
.|+.|.+.|.-.
T Consensus 4 ~Cp~C~~~y~i~ 15 (36)
T PF13717_consen 4 TCPNCQAKYEID 15 (36)
T ss_pred ECCCCCCEEeCC
Confidence 355555554433
No 108
>PHA00626 hypothetical protein
Probab=35.96 E-value=20 Score=28.75 Aligned_cols=16 Identities=13% Similarity=0.594 Sum_probs=13.0
Q ss_pred CCccccCcccccccCc
Q 006491 69 TNRFICEVCNKGFQRE 84 (643)
Q Consensus 69 ~kpy~C~~CgK~F~~~ 84 (643)
..+|+|+.|+..|+..
T Consensus 21 snrYkCkdCGY~ft~~ 36 (59)
T PHA00626 21 SDDYVCCDCGYNDSKD 36 (59)
T ss_pred CcceEcCCCCCeechh
Confidence 4679999999988653
No 109
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=35.93 E-value=24 Score=30.81 Aligned_cols=12 Identities=33% Similarity=1.082 Sum_probs=6.0
Q ss_pred ceeecC-CCCCcC
Q 006491 173 REYRCD-CGTLFS 184 (643)
Q Consensus 173 Kpy~C~-CgK~F~ 184 (643)
.-+.|. |+..|.
T Consensus 52 GIW~C~kCg~~fA 64 (89)
T COG1997 52 GIWKCRKCGAKFA 64 (89)
T ss_pred CeEEcCCCCCeec
Confidence 345555 555553
No 110
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=35.88 E-value=32 Score=37.01 Aligned_cols=24 Identities=25% Similarity=0.686 Sum_probs=19.6
Q ss_pred ceeecC-CCCCcCChHHHHHHHHHh
Q 006491 173 REYRCD-CGTLFSRRDSFITHRAFC 196 (643)
Q Consensus 173 Kpy~C~-CgK~F~~ks~L~~H~~~H 196 (643)
..|+|+ |.-.|-.--....|...|
T Consensus 344 ~~y~C~~Ck~~FCldCDv~iHesLh 368 (378)
T KOG2807|consen 344 GRYRCESCKNVFCLDCDVFIHESLH 368 (378)
T ss_pred CcEEchhccceeeccchHHHHhhhh
Confidence 458998 999998888888887776
No 111
>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=35.61 E-value=28 Score=23.54 Aligned_cols=25 Identities=24% Similarity=0.526 Sum_probs=16.2
Q ss_pred CCCCCCCCCCCChhhhhcCccccCCCCccccCccccccc
Q 006491 44 KKRNQPGTPNPDAEVIALSPKTLMATNRFICEVCNKGFQ 82 (643)
Q Consensus 44 ~~c~~cg~~~~~~~~l~~h~k~h~~~kpy~C~~CgK~F~ 82 (643)
+.|++|+...+.. --.|+.||..|.
T Consensus 1 K~CP~C~~~V~~~--------------~~~Cp~CG~~F~ 25 (26)
T PF10571_consen 1 KTCPECGAEVPES--------------AKFCPHCGYDFE 25 (26)
T ss_pred CcCCCCcCCchhh--------------cCcCCCCCCCCc
Confidence 4677777654322 237999998884
No 112
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=35.00 E-value=21 Score=42.32 Aligned_cols=13 Identities=23% Similarity=0.537 Sum_probs=8.9
Q ss_pred cccCcccccccCc
Q 006491 72 FICEVCNKGFQRE 84 (643)
Q Consensus 72 y~C~~CgK~F~~~ 84 (643)
-.|..|++.|...
T Consensus 461 dtC~~C~kkFfSl 473 (1374)
T PTZ00303 461 DSCPSCGRAFISL 473 (1374)
T ss_pred CcccCcCCccccc
Confidence 4588888887543
No 113
>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=34.56 E-value=22 Score=34.45 Aligned_cols=34 Identities=12% Similarity=0.454 Sum_probs=21.7
Q ss_pred ccCceeeCCCCCccCCCCCCcccChhhHHhHhhhccCCcccccccccccc
Q 006491 108 VKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRY 157 (643)
Q Consensus 108 ~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~geKpfkC~~CgKsF 157 (643)
.....|.|+.| ...|+....+. .-|.|+.||...
T Consensus 105 ~~~~~Y~Cp~c-------~~r~tf~eA~~---------~~F~Cp~Cg~~L 138 (158)
T TIGR00373 105 TNNMFFICPNM-------CVRFTFNEAME---------LNFTCPRCGAML 138 (158)
T ss_pred cCCCeEECCCC-------CcEeeHHHHHH---------cCCcCCCCCCEe
Confidence 45567777776 66666666553 257777777653
No 114
>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=34.26 E-value=23 Score=33.37 Aligned_cols=27 Identities=30% Similarity=0.484 Sum_probs=0.0
Q ss_pred ecC-CCCCcCChHHHHHHHHHhhhhhhhhhh
Q 006491 176 RCD-CGTLFSRRDSFITHRAFCDALAQESAR 205 (643)
Q Consensus 176 ~C~-CgK~F~~ks~L~~H~~~Hh~~~~~~~~ 205 (643)
.|- |||.|+. |++|.+.||.+...+-+
T Consensus 74 ~clecGk~~k~---LkrHL~~~~gltp~eYR 101 (132)
T PF05443_consen 74 ICLECGKKFKT---LKRHLRTHHGLTPEEYR 101 (132)
T ss_dssp E-TBT--EESB---HHHHHHHTT-S-HHHHH
T ss_pred EEccCCcccch---HHHHHHHccCCCHHHHH
No 115
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=34.10 E-value=28 Score=25.32 Aligned_cols=11 Identities=36% Similarity=1.002 Sum_probs=4.9
Q ss_pred ccccccccccc
Q 006491 147 KWKCEKCSKRY 157 (643)
Q Consensus 147 pfkC~~CgKsF 157 (643)
..+|..|+..|
T Consensus 25 ~vrC~~C~~~f 35 (37)
T PF13719_consen 25 KVRCPKCGHVF 35 (37)
T ss_pred EEECCCCCcEe
Confidence 34444444443
No 116
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=33.62 E-value=23 Score=35.06 Aligned_cols=10 Identities=20% Similarity=0.969 Sum_probs=5.3
Q ss_pred cccccccccc
Q 006491 147 KWKCEKCSKR 156 (643)
Q Consensus 147 pfkC~~CgKs 156 (643)
-|.|+.|+..
T Consensus 136 ~F~Cp~Cg~~ 145 (178)
T PRK06266 136 GFRCPQCGEM 145 (178)
T ss_pred CCcCCCCCCC
Confidence 3555555543
No 117
>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=33.39 E-value=31 Score=33.34 Aligned_cols=34 Identities=15% Similarity=0.543 Sum_probs=26.6
Q ss_pred CCcccccccccccccchhhhhhcccccCCceeecC-CCCCcCC
Q 006491 144 GEKKWKCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CGTLFSR 185 (643)
Q Consensus 144 geKpfkC~~CgKsF~~ks~L~~H~rthgeKpy~C~-CgK~F~~ 185 (643)
...-|.|+.|+.+|.....+. ..|.|+ ||.....
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 345699999999998888775 369999 9977543
No 118
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.35 E-value=21 Score=32.45 Aligned_cols=12 Identities=17% Similarity=0.130 Sum_probs=6.6
Q ss_pred cccccccccccc
Q 006491 146 KKWKCEKCSKRY 157 (643)
Q Consensus 146 KpfkC~~CgKsF 157 (643)
.|..|++|+|+|
T Consensus 25 dPiVsPytG~s~ 36 (129)
T COG4530 25 DPIVSPYTGKSY 36 (129)
T ss_pred CccccCcccccc
Confidence 455555555555
No 119
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=33.31 E-value=24 Score=31.14 Aligned_cols=31 Identities=26% Similarity=0.553 Sum_probs=17.6
Q ss_pred cccccccccccccchhhhhhcccccCCceeecC-CCCCcCC
Q 006491 146 KKWKCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CGTLFSR 185 (643)
Q Consensus 146 KpfkC~~CgKsF~~ks~L~~H~rthgeKpy~C~-CgK~F~~ 185 (643)
.+|.|+.|++.- ++......+.|. |++.|.-
T Consensus 35 a~y~CpfCgk~~---------vkR~a~GIW~C~~C~~~~AG 66 (90)
T PTZ00255 35 AKYFCPFCGKHA---------VKRQAVGIWRCKGCKKTVAG 66 (90)
T ss_pred CCccCCCCCCCc---------eeeeeeEEEEcCCCCCEEeC
Confidence 467777776531 111334567777 7777653
No 120
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=32.19 E-value=31 Score=34.06 Aligned_cols=34 Identities=21% Similarity=0.673 Sum_probs=26.4
Q ss_pred CcccccccccccccchhhhhhcccccCCceeecC-CCCCcCCh
Q 006491 145 EKKWKCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CGTLFSRR 186 (643)
Q Consensus 145 eKpfkC~~CgKsF~~ks~L~~H~rthgeKpy~C~-CgK~F~~k 186 (643)
..-|.|+.|+++|.....+. .-|.|+ ||......
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 35699999999998877664 369999 99876553
No 121
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=32.13 E-value=14 Score=31.20 Aligned_cols=43 Identities=9% Similarity=0.086 Sum_probs=28.5
Q ss_pred CCCCCCCCCCCChhhhhcCccccCCCCccccC--cccccccCchhHH
Q 006491 44 KKRNQPGTPNPDAEVIALSPKTLMATNRFICE--VCNKGFQREQNLQ 88 (643)
Q Consensus 44 ~~c~~cg~~~~~~~~l~~h~k~h~~~kpy~C~--~CgK~F~~~~~L~ 88 (643)
..|..|+........-..+.. ..+..++|. +|+.+|.....+.
T Consensus 2 m~CP~Cg~~a~irtSr~~s~~--~~~~Y~qC~N~eCg~tF~t~es~s 46 (72)
T PRK09678 2 FHCPLCQHAAHARTSRYITDT--TKERYHQCQNVNCSATFITYESVQ 46 (72)
T ss_pred ccCCCCCCccEEEEChhcChh--hheeeeecCCCCCCCEEEEEEEEE
Confidence 368888877643333333322 556788998 8999998776653
No 122
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=31.75 E-value=30 Score=26.64 Aligned_cols=22 Identities=27% Similarity=0.557 Sum_probs=14.1
Q ss_pred eecC-CCCCcCCh-----HHHHHHHH-Hh
Q 006491 175 YRCD-CGTLFSRR-----DSFITHRA-FC 196 (643)
Q Consensus 175 y~C~-CgK~F~~k-----s~L~~H~~-~H 196 (643)
-.|. |++.+... +.|.+|++ .|
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~~~h 47 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLRRKH 47 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHHhHC
Confidence 3555 66666554 58888887 44
No 123
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=31.29 E-value=50 Score=34.32 Aligned_cols=77 Identities=21% Similarity=0.381 Sum_probs=44.4
Q ss_pred CchhHHhHhhhcCCCccccccccccccCceeeCCCCCccCCCCCCcccChhhHHhHhhhccCCcccccccccccccchhh
Q 006491 83 REQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQSD 162 (643)
Q Consensus 83 ~~~~L~~H~r~H~~~~~~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~geKpfkC~~CgKsF~~ks~ 162 (643)
+..+|+.+.+.+.. ..-...+.|.|..| ...+- +++-....--+|..|.+.|.---.
T Consensus 91 Te~Nlrm~d~a~~~--------~ip~~drqFaC~~C-------d~~Ww--------Rrvp~rKeVSRCr~C~~rYDPVP~ 147 (278)
T PF15135_consen 91 TEENLRMFDDAQEN--------LIPSVDRQFACSSC-------DHMWW--------RRVPQRKEVSRCRKCRKRYDPVPC 147 (278)
T ss_pred hHHHHHHhhhhhhc--------cccccceeeecccc-------chHHH--------hccCcccccccccccccccCCCcc
Confidence 34566666655420 11124578999998 33221 122222334679999888754321
Q ss_pred hhhcccccCCceeecC-CCCCcCCh
Q 006491 163 WKAHSKTCGTREYRCD-CGTLFSRR 186 (643)
Q Consensus 163 L~~H~rthgeKpy~C~-CgK~F~~k 186 (643)
-+..|.-.|.|. |+..|+-.
T Consensus 148 ----dkmwG~aef~C~~C~h~F~G~ 168 (278)
T PF15135_consen 148 ----DKMWGIAEFHCPKCRHNFRGF 168 (278)
T ss_pred ----ccccceeeeecccccccchhh
Confidence 122566779998 99999754
No 124
>PRK14873 primosome assembly protein PriA; Provisional
Probab=31.29 E-value=35 Score=40.62 Aligned_cols=9 Identities=22% Similarity=0.619 Sum_probs=5.2
Q ss_pred ccCcccccc
Q 006491 73 ICEVCNKGF 81 (643)
Q Consensus 73 ~C~~CgK~F 81 (643)
.|..|+..+
T Consensus 385 ~C~~Cg~~~ 393 (665)
T PRK14873 385 ACARCRTPA 393 (665)
T ss_pred EhhhCcCee
Confidence 566666543
No 125
>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=31.28 E-value=25 Score=31.01 Aligned_cols=30 Identities=33% Similarity=0.753 Sum_probs=17.0
Q ss_pred cccccccccccccchhhhhhcccccCCceeecC-CCCCcC
Q 006491 146 KKWKCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CGTLFS 184 (643)
Q Consensus 146 KpfkC~~CgKsF~~ks~L~~H~rthgeKpy~C~-CgK~F~ 184 (643)
..|.|+.|++.- ++......+.|. |++.|.
T Consensus 34 a~y~CpfCgk~~---------vkR~a~GIW~C~~C~~~~A 64 (91)
T TIGR00280 34 AKYVCPFCGKKT---------VKRGSTGIWTCRKCGAKFA 64 (91)
T ss_pred cCccCCCCCCCc---------eEEEeeEEEEcCCCCCEEe
Confidence 457777776531 111334557777 777764
No 126
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=31.19 E-value=30 Score=32.91 Aligned_cols=42 Identities=17% Similarity=0.407 Sum_probs=28.0
Q ss_pred ccccCceeeCCCCCccCCCCCCcccChhhHHhHhhhccCCccccccccccccc
Q 006491 106 KEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYA 158 (643)
Q Consensus 106 ~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~geKpfkC~~CgKsF~ 158 (643)
.......|.|+.| ++.|.....+..- .. +..|.|+.|+....
T Consensus 93 ~e~~~~~Y~Cp~C-------~~~y~~~ea~~~~---d~-~~~f~Cp~Cg~~l~ 134 (147)
T smart00531 93 DETNNAYYKCPNC-------QSKYTFLEANQLL---DM-DGTFTCPRCGEELE 134 (147)
T ss_pred cccCCcEEECcCC-------CCEeeHHHHHHhc---CC-CCcEECCCCCCEEE
Confidence 3346679999998 7888765443320 11 34499999998653
No 127
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=31.02 E-value=30 Score=31.46 Aligned_cols=38 Identities=11% Similarity=0.171 Sum_probs=27.8
Q ss_pred CCCCCCCCCCCCCCCCChhhhhcCccccCCCCccccCcccccccCchhHH
Q 006491 39 PPPQKKKRNQPGTPNPDAEVIALSPKTLMATNRFICEVCNKGFQREQNLQ 88 (643)
Q Consensus 39 ~~p~~~~c~~cg~~~~~~~~l~~h~k~h~~~kpy~C~~CgK~F~~~~~L~ 88 (643)
..-.|..|+.|++.|.+.. ..|..|++|+|.|. .+.|.
T Consensus 5 eLGtKridPetg~KFYDLN-----------rdPiVsPytG~s~P-~s~fe 42 (129)
T COG4530 5 ELGTKRIDPETGKKFYDLN-----------RDPIVSPYTGKSYP-RSYFE 42 (129)
T ss_pred cccccccCccccchhhccC-----------CCccccCcccccch-HHHHH
Confidence 3445778999999988653 37889999999994 34443
No 128
>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=30.58 E-value=36 Score=24.38 Aligned_cols=10 Identities=30% Similarity=0.611 Sum_probs=6.6
Q ss_pred cccccccccc
Q 006491 146 KKWKCEKCSK 155 (643)
Q Consensus 146 KpfkC~~CgK 155 (643)
.|.+|++|+.
T Consensus 17 ~p~~CP~Cg~ 26 (34)
T cd00729 17 APEKCPICGA 26 (34)
T ss_pred CCCcCcCCCC
Confidence 4567777764
No 129
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=30.46 E-value=41 Score=37.57 Aligned_cols=35 Identities=26% Similarity=0.649 Sum_probs=24.4
Q ss_pred Ccccccccccccccchhhhhhcccc-cCCceeecC-CCCC
Q 006491 145 EKKWKCEKCSKRYAVQSDWKAHSKT-CGTREYRCD-CGTL 182 (643)
Q Consensus 145 eKpfkC~~CgKsF~~ks~L~~H~rt-hgeKpy~C~-CgK~ 182 (643)
..-|.|+.|.+.|.....+. .. -.+-.|.|. |+--
T Consensus 126 ~~~Y~Cp~C~kkyt~Lea~~---L~~~~~~~F~C~~C~ge 162 (436)
T KOG2593|consen 126 VAGYVCPNCQKKYTSLEALQ---LLDNETGEFHCENCGGE 162 (436)
T ss_pred cccccCCccccchhhhHHHH---hhcccCceEEEecCCCc
Confidence 35699999999987665543 22 345679998 9744
No 130
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=30.14 E-value=23 Score=29.93 Aligned_cols=15 Identities=27% Similarity=0.638 Sum_probs=7.8
Q ss_pred CCceeecC---CCCCcCC
Q 006491 171 GTREYRCD---CGTLFSR 185 (643)
Q Consensus 171 geKpy~C~---CgK~F~~ 185 (643)
.++-|.|. |+.+|..
T Consensus 24 ~~~Y~qC~N~eCg~tF~t 41 (72)
T PRK09678 24 KERYHQCQNVNCSATFIT 41 (72)
T ss_pred heeeeecCCCCCCCEEEE
Confidence 34445562 6666654
No 131
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=29.81 E-value=12 Score=44.12 Aligned_cols=25 Identities=28% Similarity=0.535 Sum_probs=23.4
Q ss_pred ccccCcccccccCchhHHhHhhhcC
Q 006491 71 RFICEVCNKGFQREQNLQLHRRGHN 95 (643)
Q Consensus 71 py~C~~CgK~F~~~~~L~~H~r~H~ 95 (643)
-|.|.+|+|.|.....+..||++|.
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHH
Confidence 4899999999999999999999995
No 132
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=29.73 E-value=42 Score=40.01 Aligned_cols=46 Identities=11% Similarity=0.024 Sum_probs=29.9
Q ss_pred CCCCCCCCC-CCCCCCCCCCCCChhhhhcCccccCCCCccccCcccccccCchh
Q 006491 34 APPPVPPPQ-KKKRNQPGTPNPDAEVIALSPKTLMATNRFICEVCNKGFQREQN 86 (643)
Q Consensus 34 ~p~~~~~p~-~~~c~~cg~~~~~~~~l~~h~k~h~~~kpy~C~~CgK~F~~~~~ 86 (643)
.|.+.+..+ ...|..|.+.|...... ...+++-|..||..|.....
T Consensus 450 APvWqpDDEaSdtC~~C~kkFfSlsK~-------L~~RKHHCRkCGrVFC~~CS 496 (1374)
T PTZ00303 450 NPSWQKDDESSDSCPSCGRAFISLSRP-------LGTRAHHCRSCGIRLCVFCI 496 (1374)
T ss_pred CCCCCCCcccCCcccCcCCcccccccc-------cccccccccCCccccCcccc
Confidence 345555554 36799999999754211 12356789999988876543
No 133
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=29.69 E-value=28 Score=25.85 Aligned_cols=12 Identities=33% Similarity=0.844 Sum_probs=7.6
Q ss_pred ceeecC-CCCCcC
Q 006491 173 REYRCD-CGTLFS 184 (643)
Q Consensus 173 Kpy~C~-CgK~F~ 184 (643)
.-|+|. |+..|+
T Consensus 27 ~fy~C~~C~~~w~ 39 (40)
T smart00440 27 VFYVCTKCGHRWR 39 (40)
T ss_pred EEEEeCCCCCEeC
Confidence 457776 776654
No 134
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=29.28 E-value=28 Score=34.09 Aligned_cols=23 Identities=30% Similarity=0.836 Sum_probs=18.7
Q ss_pred ccccccccccccchhhhhhcccccCCceeecC-CCC
Q 006491 147 KWKCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CGT 181 (643)
Q Consensus 147 pfkC~~CgKsF~~ks~L~~H~rthgeKpy~C~-CgK 181 (643)
-|.|++||.++. ++-|-+|+ |+-
T Consensus 134 ~~vC~vCGy~~~------------ge~P~~CPiCga 157 (166)
T COG1592 134 VWVCPVCGYTHE------------GEAPEVCPICGA 157 (166)
T ss_pred EEEcCCCCCccc------------CCCCCcCCCCCC
Confidence 599999998764 46788999 983
No 135
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=29.17 E-value=27 Score=41.94 Aligned_cols=27 Identities=19% Similarity=0.583 Sum_probs=18.7
Q ss_pred ccCCcccccccccccccchhhhhhcccccCCceeecC-CCCC
Q 006491 142 KHGEKKWKCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CGTL 182 (643)
Q Consensus 142 H~geKpfkC~~CgKsF~~ks~L~~H~rthgeKpy~C~-CgK~ 182 (643)
|...+..+|.+|++. ...|..|+ |+..
T Consensus 457 H~~~~~L~CH~Cg~~--------------~~~p~~Cp~Cgs~ 484 (730)
T COG1198 457 HKATGQLRCHYCGYQ--------------EPIPQSCPECGSE 484 (730)
T ss_pred ecCCCeeEeCCCCCC--------------CCCCCCCCCCCCC
Confidence 333456788888763 35788998 9866
No 136
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=28.84 E-value=37 Score=26.69 Aligned_cols=28 Identities=14% Similarity=0.351 Sum_probs=15.9
Q ss_pred hhhHHhHhhhccCCccccccc----ccccccc
Q 006491 132 LTGIKKHYSRKHGEKKWKCEK----CSKRYAV 159 (643)
Q Consensus 132 ~s~L~~H~r~H~geKpfkC~~----CgKsF~~ 159 (643)
+..|..|+...-..++..|.+ |...+..
T Consensus 23 r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~~ 54 (60)
T PF02176_consen 23 RKELDDHLENECPKRPVPCPYSPYGCKERVPR 54 (60)
T ss_dssp CCCHHHHHHTTSTTSEEE-SS----S--EEEH
T ss_pred HHHHHHHHHccCCCCcEECCCCCCCCCCccch
Confidence 445777777665566677777 7666543
No 137
>PF14353 CpXC: CpXC protein
Probab=28.71 E-value=8.4 Score=35.59 Aligned_cols=51 Identities=20% Similarity=0.208 Sum_probs=33.7
Q ss_pred CCCCCCCCCCCChhhhhcC--------ccccCC-CCccccCcccccccCchhHHhHhhhc
Q 006491 44 KKRNQPGTPNPDAEVIALS--------PKTLMA-TNRFICEVCNKGFQREQNLQLHRRGH 94 (643)
Q Consensus 44 ~~c~~cg~~~~~~~~l~~h--------~k~h~~-~kpy~C~~CgK~F~~~~~L~~H~r~H 94 (643)
-.|+.|+..|......... .+...+ -..|.|+.|++.|.-...+..|-..+
T Consensus 2 itCP~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~~~p~lY~D~~~ 61 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCPSCGHKFRLEYPLLYHDPEK 61 (128)
T ss_pred cCCCCCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCceecCCCEEEEcCCC
Confidence 4688898887754222221 111222 23689999999999888888887665
No 138
>PF01780 Ribosomal_L37ae: Ribosomal L37ae protein family; InterPro: IPR002674 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This ribosomal protein is found in archaebacteria and eukaryotes []. Ribosomal protein L37 has a single zinc finger-like motif of the C2-C2 type [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_Y 4A17_Y 4A1C_Y 4A1A_Y 3O58_g 3IZS_m 3O5H_g 1S1I_9 3IZR_m 1YSH_D ....
Probab=28.45 E-value=23 Score=31.16 Aligned_cols=30 Identities=33% Similarity=0.800 Sum_probs=15.3
Q ss_pred cccccccccccccchhhhhhcccccCCceeecC-CCCCcC
Q 006491 146 KKWKCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CGTLFS 184 (643)
Q Consensus 146 KpfkC~~CgKsF~~ks~L~~H~rthgeKpy~C~-CgK~F~ 184 (643)
..|.|+.|++.- ++....--+.|. |++.|.
T Consensus 34 ~ky~Cp~Cgk~~---------vkR~a~GIW~C~~C~~~~A 64 (90)
T PF01780_consen 34 AKYTCPFCGKTS---------VKRVATGIWKCKKCGKKFA 64 (90)
T ss_dssp S-BEESSSSSSE---------EEEEETTEEEETTTTEEEE
T ss_pred CCCcCCCCCCce---------eEEeeeEEeecCCCCCEEe
Confidence 456777776632 111223346676 776653
No 139
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=28.01 E-value=32 Score=27.05 Aligned_cols=46 Identities=20% Similarity=0.510 Sum_probs=27.6
Q ss_pred Cccccccc--ccccccchhhhhhcccc-cCCceeecC-----CCCCcCChHHHHHH
Q 006491 145 EKKWKCEK--CSKRYAVQSDWKAHSKT-CGTREYRCD-----CGTLFSRRDSFITH 192 (643)
Q Consensus 145 eKpfkC~~--CgKsF~~ks~L~~H~rt-hgeKpy~C~-----CgK~F~~ks~L~~H 192 (643)
..+..|+. |.+.+ .+..|..|+.. ...++..|. |...+.+ ..|.+|
T Consensus 7 ~~~v~C~~~cc~~~i-~r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~~-~~l~~H 60 (60)
T PF02176_consen 7 FRPVPCPNGCCNEMI-PRKELDDHLENECPKRPVPCPYSPYGCKERVPR-EDLEEH 60 (60)
T ss_dssp TSEEE-TT--S-BEE-ECCCHHHHHHTTSTTSEEE-SS----S--EEEH-HHHHHC
T ss_pred CCEeeCCCCCcccce-eHHHHHHHHHccCCCCcEECCCCCCCCCCccch-hHHhCC
Confidence 45678888 54445 46689999996 788888883 8777753 344443
No 140
>PRK04023 DNA polymerase II large subunit; Validated
Probab=27.79 E-value=97 Score=38.35 Aligned_cols=10 Identities=40% Similarity=0.890 Sum_probs=5.8
Q ss_pred eeecC-CCCCc
Q 006491 174 EYRCD-CGTLF 183 (643)
Q Consensus 174 py~C~-CgK~F 183 (643)
+|.|+ |+..-
T Consensus 663 ~y~CPKCG~El 673 (1121)
T PRK04023 663 EDECEKCGREP 673 (1121)
T ss_pred CCcCCCCCCCC
Confidence 46676 76443
No 141
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=26.99 E-value=32 Score=30.34 Aligned_cols=31 Identities=32% Similarity=0.731 Sum_probs=17.5
Q ss_pred cccccccccccccchhhhhhcccccCCceeecC-CCCCcCC
Q 006491 146 KKWKCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CGTLFSR 185 (643)
Q Consensus 146 KpfkC~~CgKsF~~ks~L~~H~rthgeKpy~C~-CgK~F~~ 185 (643)
..|.|+.|++.- ++......+.|. |++.|.-
T Consensus 35 a~y~CpfCgk~~---------vkR~a~GIW~C~~C~~~~AG 66 (90)
T PRK03976 35 AKHVCPVCGRPK---------VKRVGTGIWECRKCGAKFAG 66 (90)
T ss_pred cCccCCCCCCCc---------eEEEEEEEEEcCCCCCEEeC
Confidence 457777776531 111334557777 7777653
No 142
>PF01096 TFIIS_C: Transcription factor S-II (TFIIS); InterPro: IPR001222 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIs (TFIIS). In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least eight different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, -IIH and -IIS []. During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. Such backtracking involves extrusion of the RNA 3'-end into the pore, and can lead to transcriptional arrest. Escape from arrest requires cleavage of the extruded RNA with the help of TFIIS, which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites []. TFIIS extends from the polymerase surface via a pore to the internal active site. Two essential and invariant acidic residues in a TFIIS loop complement the Pol II active site and could position a metal ion and a water molecule for hydrolytic RNA cleavage. TFIIS also induces extensive structural changes in Pol II that would realign nucleic acids in the active centre. TFIIS is a protein of about 300 amino acids. It contains three regions: a variable N-terminal domain not required for TFIIS activity; a conserved central domain required for Pol II binding; and a conserved C-terminal C4-type zinc finger essential for RNA cleavage. The zinc finger folds in a conformation termed a zinc ribbon [] characterised by a three-stranded antiparallel beta-sheet and two beta-hairpins. A backbone model for Pol II-TFIIS complex was obtained from X-ray analysis. It shows that a beta hairpin protrudes from the zinc finger and complements the pol II active site []. Some viral proteins also contain the TFIIS zinc ribbon C-terminal domain. The Vaccinia virus protein, unlike its eukaryotic homologue, is an integral RNA polymerase subunit rather than a readily separable transcription factor []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0006351 transcription, DNA-dependent; PDB: 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I 3I4M_I ....
Probab=26.77 E-value=16 Score=26.96 Aligned_cols=11 Identities=36% Similarity=0.824 Sum_probs=7.0
Q ss_pred ceeecC-CCCCc
Q 006491 173 REYRCD-CGTLF 183 (643)
Q Consensus 173 Kpy~C~-CgK~F 183 (643)
.-|.|. |++.|
T Consensus 27 ~fy~C~~C~~~w 38 (39)
T PF01096_consen 27 LFYVCCNCGHRW 38 (39)
T ss_dssp EEEEESSSTEEE
T ss_pred EEEEeCCCCCee
Confidence 347776 77655
No 143
>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=26.49 E-value=26 Score=27.01 Aligned_cols=30 Identities=17% Similarity=0.404 Sum_probs=16.0
Q ss_pred eeeCCCCCccCCCCCCcccChhhHHhHhhhccCCcccccccccc
Q 006491 112 VYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSK 155 (643)
Q Consensus 112 ~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~geKpfkC~~CgK 155 (643)
.|+|..| +..|.....+ .. +.+-.|+.|+.
T Consensus 5 ey~C~~C-------g~~fe~~~~~------~~-~~~~~CP~Cg~ 34 (52)
T TIGR02605 5 EYRCTAC-------GHRFEVLQKM------SD-DPLATCPECGG 34 (52)
T ss_pred EEEeCCC-------CCEeEEEEec------CC-CCCCCCCCCCC
Confidence 4677776 6666533211 11 34456777775
No 144
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=26.46 E-value=8.9 Score=45.16 Aligned_cols=82 Identities=21% Similarity=0.305 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCCCCCChhhhhcCccccCCCCcc-ccCcccccccCchhHHhHhhhcCCCccccccccccccCceeeCCCC
Q 006491 40 PPQKKKRNQPGTPNPDAEVIALSPKTLMATNRF-ICEVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEP 118 (643)
Q Consensus 40 ~p~~~~c~~cg~~~~~~~~l~~h~k~h~~~kpy-~C~~CgK~F~~~~~L~~H~r~H~~~~~~~~~~~~~~~~k~y~C~~C 118 (643)
+|.--.|+.|-+...+...-..+ -|| .|..||-.|+-...|=.-+..-+ -...-.|+.|
T Consensus 98 ~pD~a~C~~Cl~Ei~dp~~rrY~-------YPF~~CT~CGPRfTIi~alPYDR~nTs-------------M~~F~lC~~C 157 (750)
T COG0068 98 PPDAATCEDCLEEIFDPNSRRYL-------YPFINCTNCGPRFTIIEALPYDRENTS-------------MADFPLCPFC 157 (750)
T ss_pred CCchhhhHHHHHHhcCCCCccee-------ccccccCCCCcceeeeccCCCCcccCc-------------cccCcCCHHH
Q ss_pred CccCCCCCCcccChhhHHhHhhhccCCccccccccc
Q 006491 119 TCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCS 154 (643)
Q Consensus 119 ~C~~~~~~k~F~~~s~L~~H~r~H~geKpfkC~~Cg 154 (643)
.+.|.+...-+-|.. |.-|+.|+
T Consensus 158 -------~~EY~dP~nRRfHAQ------p~aCp~CG 180 (750)
T COG0068 158 -------DKEYKDPLNRRFHAQ------PIACPKCG 180 (750)
T ss_pred -------HHHhcCccccccccc------cccCcccC
No 145
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=25.72 E-value=51 Score=37.86 Aligned_cols=45 Identities=18% Similarity=0.307 Sum_probs=0.0
Q ss_pred CCCCCCCCCChhhhhcCccccCCCCccccCcccccccCchhHHhHhhhcCCCccccccccccccCceeeCCCCCccCCCC
Q 006491 46 RNQPGTPNPDAEVIALSPKTLMATNRFICEVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDP 125 (643)
Q Consensus 46 c~~cg~~~~~~~~l~~h~k~h~~~kpy~C~~CgK~F~~~~~L~~H~r~H~~~~~~~~~~~~~~~~k~y~C~~C~C~~~~~ 125 (643)
|..|+ ...+|+.|+-.. ..|. ......|.+|
T Consensus 216 C~~Cg-------------------~~~~C~~C~~~l----------~~h~-------------~~~~l~Ch~C------- 246 (505)
T TIGR00595 216 CRSCG-------------------YILCCPNCDVSL----------TYHK-------------KEGKLRCHYC------- 246 (505)
T ss_pred hhhCc-------------------CccCCCCCCCce----------EEec-------------CCCeEEcCCC-------
Q ss_pred CCcccChhhHHhHhhhccCCccccccccc
Q 006491 126 SRALGDLTGIKKHYSRKHGEKKWKCEKCS 154 (643)
Q Consensus 126 ~k~F~~~s~L~~H~r~H~geKpfkC~~Cg 154 (643)
+... ..|..|+.|+
T Consensus 247 g~~~---------------~~~~~Cp~C~ 260 (505)
T TIGR00595 247 GYQE---------------PIPKTCPQCG 260 (505)
T ss_pred cCcC---------------CCCCCCCCCC
No 146
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=25.50 E-value=65 Score=37.49 Aligned_cols=14 Identities=36% Similarity=0.363 Sum_probs=10.2
Q ss_pred HHHHHHHHHhcCcc
Q 006491 451 ATALLQKAAQMGST 464 (643)
Q Consensus 451 atallqkaaqmg~t 464 (643)
|++.|.-|+.-|-+
T Consensus 517 ~~~Ylela~~~gyd 530 (715)
T COG1107 517 AEQYLELAAERGYD 530 (715)
T ss_pred HHHHHHHHHhcCCC
Confidence 57788888877744
No 147
>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=25.28 E-value=35 Score=32.71 Aligned_cols=45 Identities=16% Similarity=0.084 Sum_probs=25.7
Q ss_pred CCCCCCCCCCChhhhhcCccccCCCCccccCcccccccCchhHHh
Q 006491 45 KRNQPGTPNPDAEVIALSPKTLMATNRFICEVCNKGFQREQNLQL 89 (643)
Q Consensus 45 ~c~~cg~~~~~~~~l~~h~k~h~~~kpy~C~~CgK~F~~~~~L~~ 89 (643)
+|+.|+......-.-........-.++=+|..|++.|++...+..
T Consensus 2 ~CP~C~~~dtkViDSR~~~dg~~IRRRReC~~C~~RFTTyErve~ 46 (147)
T TIGR00244 2 HCPFCQHHNTRVLDSRLVEDGQSIRRRRECLECHERFTTFERAEL 46 (147)
T ss_pred CCCCCCCCCCEeeeccccCCCCeeeecccCCccCCccceeeeccc
Confidence 577777654433222222221222355689999999998776543
No 148
>KOG2461 consensus Transcription factor BLIMP-1/PRDI-BF1, contains C2H2-type Zn-finger and SET domains [Transcription]
Probab=25.17 E-value=1.2e+02 Score=33.82 Aligned_cols=21 Identities=0% Similarity=-0.306 Sum_probs=7.8
Q ss_pred cccCcccccccCchhHHhHhh
Q 006491 72 FICEVCNKGFQREQNLQLHRR 92 (643)
Q Consensus 72 y~C~~CgK~F~~~~~L~~H~r 92 (643)
+.|.+|.+.+.....+..|..
T Consensus 332 ~~~~~~~~~~~~~~~~~~~~~ 352 (396)
T KOG2461|consen 332 TGETIPVRTPAGQLIYTQSHS 352 (396)
T ss_pred CcCcccccccccccchhhhhh
Confidence 333333333333333333333
No 149
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=24.73 E-value=39 Score=37.80 Aligned_cols=30 Identities=33% Similarity=0.734 Sum_probs=22.7
Q ss_pred cccccccccccchhhhhhcccccCCceeecC-CCCCcCChH
Q 006491 148 WKCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CGTLFSRRD 187 (643)
Q Consensus 148 fkC~~CgKsF~~ks~L~~H~rthgeKpy~C~-CgK~F~~ks 187 (643)
-+|+.|+.+ |+..|.+-|+|. |++++....
T Consensus 351 p~Cp~Cg~~----------m~S~G~~g~rC~kCg~~~~~~~ 381 (421)
T COG1571 351 PVCPRCGGR----------MKSAGRNGFRCKKCGTRARETL 381 (421)
T ss_pred CCCCccCCc----------hhhcCCCCcccccccccCCccc
Confidence 379999975 344455689999 999997653
No 150
>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=24.10 E-value=32 Score=24.89 Aligned_cols=10 Identities=20% Similarity=0.561 Sum_probs=5.9
Q ss_pred cccccccccc
Q 006491 146 KKWKCEKCSK 155 (643)
Q Consensus 146 KpfkC~~CgK 155 (643)
....|+.|+.
T Consensus 25 ~~~~CP~Cg~ 34 (41)
T smart00834 25 PLATCPECGG 34 (41)
T ss_pred CCCCCCCCCC
Confidence 3455666665
No 151
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=23.96 E-value=39 Score=26.47 Aligned_cols=10 Identities=30% Similarity=0.846 Sum_probs=5.3
Q ss_pred cccccccccc
Q 006491 147 KWKCEKCSKR 156 (643)
Q Consensus 147 pfkC~~CgKs 156 (643)
...|+.|+..
T Consensus 24 ~irCp~Cg~r 33 (49)
T COG1996 24 GIRCPYCGSR 33 (49)
T ss_pred ceeCCCCCcE
Confidence 4556666543
No 152
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=23.76 E-value=68 Score=37.24 Aligned_cols=25 Identities=16% Similarity=0.468 Sum_probs=17.3
Q ss_pred Ccccccccccccccchhhhhhcccc
Q 006491 145 EKKWKCEKCSKRYAVQSDWKAHSKT 169 (643)
Q Consensus 145 eKpfkC~~CgKsF~~ks~L~~H~rt 169 (643)
.+|-.|..||++|........||-.
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~ 440 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDI 440 (579)
T ss_pred CCcchhcccccccccchhhhhHhhh
Confidence 5567888888888777665555443
No 153
>PF11494 Ta0938: Ta0938; InterPro: IPR021585 Ta0938 is a protein of unknown function however the structure has been determined. The protein has a novel fold and a putative Zn-binding motif. The structure has two different parts, one region contains a beta sheet flanked by two alpha helices and the other contains a bundle of loops which contain all cysteines in the protein. ; PDB: 2FQH_A.
Probab=23.28 E-value=51 Score=29.40 Aligned_cols=38 Identities=26% Similarity=0.614 Sum_probs=16.8
Q ss_pred CCcccccccccccccchhhhhhcccccCCceeec-C-CCCCcCCh
Q 006491 144 GEKKWKCEKCSKRYAVQSDWKAHSKTCGTREYRC-D-CGTLFSRR 186 (643)
Q Consensus 144 geKpfkC~~CgKsF~~ks~L~~H~rthgeKpy~C-~-CgK~F~~k 186 (643)
+.|.-.|..|++++- ..+..+-++|.|-| + |-+.|..-
T Consensus 11 g~ke~~CalCG~tWg-----~~y~Ev~G~rLfFCCd~ca~EF~nm 50 (105)
T PF11494_consen 11 GTKEMGCALCGATWG-----DYYEEVDGERLFFCCDDCAKEFKNM 50 (105)
T ss_dssp -SGGGS-SS---S--------SS-B-TT--BSSS--SSSS-TTS-
T ss_pred ccccccccccCCcHH-----HHHHhhcCCEEEEEcHHHHHHHHHH
Confidence 456678999998775 23445567777665 6 99999874
No 154
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=23.21 E-value=56 Score=26.63 Aligned_cols=8 Identities=63% Similarity=1.713 Sum_probs=4.6
Q ss_pred ceeecC-CC
Q 006491 173 REYRCD-CG 180 (643)
Q Consensus 173 Kpy~C~-Cg 180 (643)
.+|+|+ ||
T Consensus 49 ~~Y~Cp~CG 57 (61)
T COG2888 49 NPYRCPKCG 57 (61)
T ss_pred CceECCCcC
Confidence 456665 65
No 155
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=23.17 E-value=44 Score=32.25 Aligned_cols=32 Identities=31% Similarity=0.878 Sum_probs=20.2
Q ss_pred cccccccccccccchhhhhhcccc-cCCceeecC-CCCC
Q 006491 146 KKWKCEKCSKRYAVQSDWKAHSKT-CGTREYRCD-CGTL 182 (643)
Q Consensus 146 KpfkC~~CgKsF~~ks~L~~H~rt-hgeKpy~C~-CgK~ 182 (643)
-+|.|. |+..|.+. ++|-+. -|+ .|.|. |+-.
T Consensus 116 ~~Y~C~-C~q~~l~~---RRhn~~~~g~-~YrC~~C~gk 149 (156)
T COG3091 116 YPYRCQ-CQQHYLRI---RRHNTVRRGE-VYRCGKCGGK 149 (156)
T ss_pred eeEEee-cCCccchh---hhcccccccc-eEEeccCCce
Confidence 367888 88776554 344444 455 78887 8644
No 156
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=23.14 E-value=14 Score=40.90 Aligned_cols=14 Identities=29% Similarity=0.327 Sum_probs=9.9
Q ss_pred CCCccCCcccccccc
Q 006491 215 SHLYASTNNMALGLS 229 (643)
Q Consensus 215 ~k~y~C~~~C~~~fs 229 (643)
...|+|.+ |++.++
T Consensus 425 v~CY~CED-Cg~~LS 438 (468)
T KOG1701|consen 425 VNCYKCED-CGLLLS 438 (468)
T ss_pred ccceehhh-cCcccc
Confidence 45678877 777666
No 157
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=23.00 E-value=45 Score=31.24 Aligned_cols=38 Identities=18% Similarity=0.257 Sum_probs=23.0
Q ss_pred CCCCCCCCCCCCChhhhhcCccccCCCCccccCcccccccCch
Q 006491 43 KKKRNQPGTPNPDAEVIALSPKTLMATNRFICEVCNKGFQREQ 85 (643)
Q Consensus 43 ~~~c~~cg~~~~~~~~l~~h~k~h~~~kpy~C~~CgK~F~~~~ 85 (643)
+..|+.|+... .. .+-..-.+..+|+|..|++.|....
T Consensus 30 ~~~cP~C~s~~--~~---k~g~~~~~~qRyrC~~C~~tf~~~~ 67 (129)
T COG3677 30 KVNCPRCKSSN--VV---KIGGIRRGHQRYKCKSCGSTFTVET 67 (129)
T ss_pred cCcCCCCCccc--ee---eECCccccccccccCCcCcceeeec
Confidence 45677776543 11 1222223367899999999997653
No 158
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.76 E-value=61 Score=32.13 Aligned_cols=14 Identities=29% Similarity=0.292 Sum_probs=10.0
Q ss_pred cccCceeeCCCCCc
Q 006491 107 EVKRKVYLCPEPTC 120 (643)
Q Consensus 107 ~~~~k~y~C~~C~C 120 (643)
+.++-.|.|++|-|
T Consensus 126 ~~~~~~~~CPiCl~ 139 (187)
T KOG0320|consen 126 LRKEGTYKCPICLD 139 (187)
T ss_pred cccccccCCCceec
Confidence 34566799999944
No 159
>PF15269 zf-C2H2_7: Zinc-finger
Probab=22.47 E-value=60 Score=24.96 Aligned_cols=23 Identities=17% Similarity=0.597 Sum_probs=18.0
Q ss_pred eeecC-CCCCcCChHHHHHHHHHh
Q 006491 174 EYRCD-CGTLFSRRDSFITHRAFC 196 (643)
Q Consensus 174 py~C~-CgK~F~~ks~L~~H~~~H 196 (643)
.|+|- |..+...+++|..|++.-
T Consensus 20 ~ykcfqcpftc~~kshl~nhmky~ 43 (54)
T PF15269_consen 20 KYKCFQCPFTCNEKSHLFNHMKYS 43 (54)
T ss_pred cceeecCCcccchHHHHHHHHHHH
Confidence 36776 888888888999998753
No 160
>PF09788 Tmemb_55A: Transmembrane protein 55A; InterPro: IPR019178 Members of this family catalyse the hydrolysis of the 4-position phosphate of phosphatidylinositol 4,5-bisphosphate, in the reaction: 1-phosphatidyl-myo-inositol 4,5-bisphosphate + H(2)O = 1-phosphatidyl-1D-myo-inositol 5-phosphate + phosphate.
Probab=22.46 E-value=3.5e+02 Score=28.36 Aligned_cols=41 Identities=22% Similarity=0.407 Sum_probs=22.9
Q ss_pred cccccccccccccchhhhhhcccccCCceeecC-CCCCcCChHHHHHHH
Q 006491 146 KKWKCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CGTLFSRRDSFITHR 193 (643)
Q Consensus 146 KpfkC~~CgKsF~~ks~L~~H~rthgeKpy~C~-CgK~F~~ks~L~~H~ 193 (643)
-.+.|..|...|...... ..-.-+|. |.|.-.--..+.+-+
T Consensus 156 ~rv~CghC~~~Fl~~~~~-------~~tlARCPHCrKvSSVG~~faRkR 197 (256)
T PF09788_consen 156 CRVICGHCSNTFLFNTLT-------SNTLARCPHCRKVSSVGPRFARKR 197 (256)
T ss_pred eeEECCCCCCcEeccCCC-------CCccccCCCCceeccccchHhhhH
Confidence 347888888888654221 11234677 776655444444433
No 161
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=21.91 E-value=51 Score=31.51 Aligned_cols=38 Identities=18% Similarity=0.359 Sum_probs=31.2
Q ss_pred CCCCCCCCCCCCCCCChhhhhcCccccCCCCccccCcccccccCchhHHhHhhhc
Q 006491 40 PPQKKKRNQPGTPNPDAEVIALSPKTLMATNRFICEVCNKGFQREQNLQLHRRGH 94 (643)
Q Consensus 40 ~p~~~~c~~cg~~~~~~~~l~~h~k~h~~~kpy~C~~CgK~F~~~~~L~~H~r~H 94 (643)
.|..+-|..||.. -+|.|.-||..|.+...|..|..+.
T Consensus 115 KP~r~fCaVCG~~-----------------S~ysC~~CG~kyCsv~C~~~HneTR 152 (156)
T KOG3362|consen 115 KPLRKFCAVCGYD-----------------SKYSCVNCGTKYCSVRCLKTHNETR 152 (156)
T ss_pred CCcchhhhhcCCC-----------------chhHHHhcCCceeechhhhhccccc
Confidence 4677889999942 4599999999999999999987654
No 162
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=21.91 E-value=46 Score=32.09 Aligned_cols=44 Identities=14% Similarity=0.095 Sum_probs=24.3
Q ss_pred CCCCCCCCCCChhhhhcCccccCCCCccccCcccccccCchhHH
Q 006491 45 KRNQPGTPNPDAEVIALSPKTLMATNRFICEVCNKGFQREQNLQ 88 (643)
Q Consensus 45 ~c~~cg~~~~~~~~l~~h~k~h~~~kpy~C~~CgK~F~~~~~L~ 88 (643)
+|+.|+......-.-........-.++-.|+.|++.|++.....
T Consensus 2 ~CPfC~~~~tkViDSR~~edg~aIRRRReC~~C~~RFTTfE~~E 45 (156)
T COG1327 2 KCPFCGHEDTKVIDSRPAEEGNAIRRRRECLECGERFTTFERAE 45 (156)
T ss_pred CCCCCCCCCCeeeecccccccchhhhhhcccccccccchhheee
Confidence 46777654443222222222222235668999999998876543
No 163
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=21.51 E-value=37 Score=35.47 Aligned_cols=79 Identities=13% Similarity=0.196 Sum_probs=42.4
Q ss_pred cCceeeCCCCCccCCCCCCcccChhhHHhHhhhc--cCCcccccccccccccchhh-------hhhcccc-----cCCce
Q 006491 109 KRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRK--HGEKKWKCEKCSKRYAVQSD-------WKAHSKT-----CGTRE 174 (643)
Q Consensus 109 ~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H--~geKpfkC~~CgKsF~~ks~-------L~~H~rt-----hgeKp 174 (643)
+.+.|.|..| ..|.....--+|+..- .....|+|.-|++.=. .+- -..|.|. -..++
T Consensus 139 GGrif~CsfC--------~~flCEDDQFEHQAsCQvLe~E~~KC~SCNrlGq-~sCLRCK~cfCddHvrrKg~ky~k~k~ 209 (314)
T PF06524_consen 139 GGRIFKCSFC--------DNFLCEDDQFEHQASCQVLESETFKCQSCNRLGQ-YSCLRCKICFCDDHVRRKGFKYEKGKP 209 (314)
T ss_pred CCeEEEeecC--------CCeeeccchhhhhhhhhhhhcccccccccccccc-hhhhheeeeehhhhhhhcccccccCCC
Confidence 6778888887 2344444444555431 1234566666654311 111 1234332 34578
Q ss_pred eecC-CCCCcCChHHHHHHHHHh
Q 006491 175 YRCD-CGTLFSRRDSFITHRAFC 196 (643)
Q Consensus 175 y~C~-CgK~F~~ks~L~~H~~~H 196 (643)
+.|+ |+........|..-.|.|
T Consensus 210 ~PCPKCg~et~eTkdLSmStR~h 232 (314)
T PF06524_consen 210 IPCPKCGYETQETKDLSMSTRSH 232 (314)
T ss_pred CCCCCCCCcccccccceeeeecc
Confidence 8888 887766666665555554
No 164
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=21.43 E-value=1.5e+02 Score=22.44 Aligned_cols=26 Identities=27% Similarity=0.779 Sum_probs=15.4
Q ss_pred cccccccccccchhhhhhcccccCCceeecC-CCC
Q 006491 148 WKCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CGT 181 (643)
Q Consensus 148 fkC~~CgKsF~~ks~L~~H~rthgeKpy~C~-CgK 181 (643)
+.|+.|+.. .+.+......|+|. |.+
T Consensus 19 ~~CP~Cg~~--------~~~~~~~~~~~~C~~C~~ 45 (46)
T PF12760_consen 19 FVCPHCGST--------KHYRLKTRGRYRCKACRK 45 (46)
T ss_pred CCCCCCCCe--------eeEEeCCCCeEECCCCCC
Confidence 668888753 12222235678887 865
No 165
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=21.06 E-value=39 Score=25.53 Aligned_cols=12 Identities=25% Similarity=0.570 Sum_probs=7.1
Q ss_pred cccccccccccc
Q 006491 147 KWKCEKCSKRYA 158 (643)
Q Consensus 147 pfkC~~CgKsF~ 158 (643)
.++|+.|+..+.
T Consensus 21 ~~~Cp~CG~~~~ 32 (46)
T PRK00398 21 GVRCPYCGYRIL 32 (46)
T ss_pred ceECCCCCCeEE
Confidence 466777765443
No 166
>PF10263 SprT-like: SprT-like family; InterPro: IPR006640 This is a family of uncharacterised bacterial proteins which includes Escherichia coli SprT (P39902 from SWISSPROT). SprT is described as a regulator of bolA gene in stationary phase []. The majority of members contain the metallopeptidase zinc binding signature which has a HExxH motif, however there is no evidence for them being metallopeptidases.
Probab=21.03 E-value=36 Score=32.15 Aligned_cols=31 Identities=32% Similarity=1.001 Sum_probs=19.8
Q ss_pred ccccccccccccchhhhhhcccccCCceeecC-CCCCcC
Q 006491 147 KWKCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CGTLFS 184 (643)
Q Consensus 147 pfkC~~CgKsF~~ks~L~~H~rthgeKpy~C~-CgK~F~ 184 (643)
.|.|..|+..+ .+|.+. ..+.|.|. |+..|.
T Consensus 123 ~~~C~~C~~~~------~r~~~~-~~~~~~C~~C~~~l~ 154 (157)
T PF10263_consen 123 VYRCPSCGREY------KRHRRS-KRKRYRCGRCGGPLV 154 (157)
T ss_pred EEEcCCCCCEe------eeeccc-chhhEECCCCCCEEE
Confidence 57788888765 334444 34558888 876654
No 167
>PRK14873 primosome assembly protein PriA; Provisional
Probab=20.95 E-value=50 Score=39.34 Aligned_cols=25 Identities=24% Similarity=0.749 Sum_probs=16.7
Q ss_pred cCCcccccccccccccchhhhhhcccccCCceeecC-CCCC
Q 006491 143 HGEKKWKCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CGTL 182 (643)
Q Consensus 143 ~geKpfkC~~CgKsF~~ks~L~~H~rthgeKpy~C~-CgK~ 182 (643)
...+..+|.+|++. ..+..|. |+..
T Consensus 406 ~~~~~l~Ch~CG~~---------------~~p~~Cp~Cgs~ 431 (665)
T PRK14873 406 SAGGTPRCRWCGRA---------------APDWRCPRCGSD 431 (665)
T ss_pred cCCCeeECCCCcCC---------------CcCccCCCCcCC
Confidence 33456778888752 2467898 9865
No 168
>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=20.52 E-value=34 Score=27.85 Aligned_cols=36 Identities=17% Similarity=0.158 Sum_probs=14.5
Q ss_pred CCCCCCCCCCCCCCCCCCChhhhhcCccccCCCCccccCcccccccCc
Q 006491 37 PVPPPQKKKRNQPGTPNPDAEVIALSPKTLMATNRFICEVCNKGFQRE 84 (643)
Q Consensus 37 ~~~~p~~~~c~~cg~~~~~~~~l~~h~k~h~~~kpy~C~~CgK~F~~~ 84 (643)
..+..+...|..|.+.|.- -.+++.|..||+.|-..
T Consensus 3 W~~d~~~~~C~~C~~~F~~------------~~rrhhCr~CG~~vC~~ 38 (69)
T PF01363_consen 3 WVPDSEASNCMICGKKFSL------------FRRRHHCRNCGRVVCSS 38 (69)
T ss_dssp SSSGGG-SB-TTT--B-BS------------SS-EEE-TTT--EEECC
T ss_pred cCCCCCCCcCcCcCCcCCC------------ceeeEccCCCCCEECCc
Confidence 3344455667777776642 13556677777666543
No 169
>PF15269 zf-C2H2_7: Zinc-finger
Probab=20.27 E-value=1.3e+02 Score=23.24 Aligned_cols=23 Identities=17% Similarity=0.283 Sum_probs=17.8
Q ss_pred cccCcccccccCchhHHhHhhhc
Q 006491 72 FICEVCNKGFQREQNLQLHRRGH 94 (643)
Q Consensus 72 y~C~~CgK~F~~~~~L~~H~r~H 94 (643)
|+|-.|..+...++.|-.|++.-
T Consensus 21 ykcfqcpftc~~kshl~nhmky~ 43 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMKYS 43 (54)
T ss_pred ceeecCCcccchHHHHHHHHHHH
Confidence 67878887777788888888653
No 170
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=20.16 E-value=57 Score=30.86 Aligned_cols=32 Identities=28% Similarity=0.839 Sum_probs=20.6
Q ss_pred ccccccccccccchhhhhhcccccCCceeecC-CCCCcC
Q 006491 147 KWKCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CGTLFS 184 (643)
Q Consensus 147 pfkC~~CgKsF~~ks~L~~H~rthgeKpy~C~-CgK~F~ 184 (643)
.|.|..|+..+. +|.|......|.|. |+-.+.
T Consensus 112 ~y~C~~C~~~~~------~~rr~~~~~~y~C~~C~g~l~ 144 (146)
T smart00731 112 PYRCTGCGQRYL------RVRRSNNVSRYRCGKCGGKLI 144 (146)
T ss_pred EEECCCCCCCCc------eEccccCcceEEcCCCCCEEE
Confidence 688888887653 33443333678887 876653
No 171
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=20.13 E-value=1.2e+02 Score=32.56 Aligned_cols=79 Identities=15% Similarity=0.281 Sum_probs=0.0
Q ss_pred CceeeCCCCCccCCCCCCcccChhhHHhHhhhccCCccccccc----ccccccchhhhhhcccccCCceeecCCC----C
Q 006491 110 RKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEK----CSKRYAVQSDWKAHSKTCGTREYRCDCG----T 181 (643)
Q Consensus 110 ~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~geKpfkC~~----CgKsF~~ks~L~~H~rthgeKpy~C~Cg----K 181 (643)
++..+|+.| ...+. ....+++..-.....+.|+. |.++|..-.. ..|.+.+.-+||.|++. +
T Consensus 78 ~~~~~CP~C-------r~~~g--~~R~~amEkV~e~~~vpC~~~~~GC~~~~~Y~~~-~~HE~~C~f~~~~CP~p~~~C~ 147 (299)
T KOG3002|consen 78 KVSNKCPTC-------RLPIG--NIRCRAMEKVAEAVLVPCKNAKLGCTKSFPYGEK-SKHEKVCEFRPCSCPVPGAECK 147 (299)
T ss_pred hhcccCCcc-------ccccc--cHHHHHHHHHHHhceecccccccCCceeeccccc-cccccccccCCcCCCCCcccCC
Q ss_pred CcCChHHHHHHHHHhhh
Q 006491 182 LFSRRDSFITHRAFCDA 198 (643)
Q Consensus 182 ~F~~ks~L~~H~~~Hh~ 198 (643)
--.....|..|.+.-|+
T Consensus 148 ~~G~~~~l~~H~~~~hk 164 (299)
T KOG3002|consen 148 YTGSYKDLYAHLNDTHK 164 (299)
T ss_pred ccCcHHHHHHHHHhhCh
Done!