Query 011334
Match_columns 488
No_of_seqs 450 out of 3164
Neff 6.4
Searched_HMMs 46136
Date Fri Mar 29 00:11:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011334.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/011334hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462 C2H2-type Zn-finger pr 99.9 2.9E-25 6.3E-30 216.2 4.5 137 60-216 127-265 (279)
2 KOG2462 C2H2-type Zn-finger pr 99.9 3.2E-24 6.9E-29 208.9 6.8 134 33-189 128-266 (279)
3 KOG1074 Transcriptional repres 99.7 5.4E-19 1.2E-23 191.8 5.0 56 33-88 351-406 (958)
4 KOG3576 Ovo and related transc 99.7 3.1E-17 6.7E-22 153.3 6.2 120 60-200 114-246 (267)
5 KOG3608 Zn finger proteins [Ge 99.6 6.6E-16 1.4E-20 154.5 3.9 183 35-224 179-384 (467)
6 KOG1074 Transcriptional repres 99.6 1.8E-15 3.9E-20 164.7 4.5 53 63-136 353-405 (958)
7 KOG3623 Homeobox transcription 99.4 3.4E-14 7.4E-19 152.5 2.5 107 63-188 210-331 (1007)
8 KOG3623 Homeobox transcription 99.4 9E-14 1.9E-18 149.4 0.5 80 138-217 892-973 (1007)
9 KOG3576 Ovo and related transc 99.3 9.9E-14 2.1E-18 130.0 -0.6 107 102-215 114-233 (267)
10 KOG3608 Zn finger proteins [Ge 99.3 7.7E-13 1.7E-17 132.7 2.3 146 63-218 177-345 (467)
11 PLN03086 PRLI-interacting fact 99.1 7.6E-11 1.7E-15 127.6 7.5 81 119-205 460-552 (567)
12 PHA00733 hypothetical protein 98.9 6E-10 1.3E-14 99.8 4.5 83 102-193 37-126 (128)
13 PLN03086 PRLI-interacting fact 98.9 1.5E-09 3.3E-14 117.6 8.1 104 61-191 451-565 (567)
14 PHA00733 hypothetical protein 98.8 3.7E-09 8E-14 94.7 3.7 97 48-164 25-124 (128)
15 PHA02768 hypothetical protein; 98.5 2.8E-08 6E-13 75.5 1.1 18 172-189 11-28 (55)
16 KOG3993 Transcription factor ( 98.5 1.3E-08 2.7E-13 104.9 -1.6 133 63-216 267-480 (500)
17 PHA02768 hypothetical protein; 98.5 8.5E-08 1.8E-12 72.8 2.3 43 140-183 5-48 (55)
18 KOG3993 Transcription factor ( 98.3 1.1E-07 2.3E-12 98.1 0.7 144 39-191 271-483 (500)
19 PF13465 zf-H2C2_2: Zinc-finge 98.2 3.2E-07 7E-12 59.4 0.8 26 127-152 1-26 (26)
20 PHA00616 hypothetical protein 97.8 8.6E-06 1.9E-10 59.2 1.4 35 167-201 1-36 (44)
21 PHA00732 hypothetical protein 97.7 1.8E-05 3.8E-10 65.1 2.2 38 119-162 8-46 (79)
22 COG5189 SFP1 Putative transcri 97.7 1.6E-05 3.5E-10 79.7 1.6 50 138-187 347-419 (423)
23 PHA00616 hypothetical protein 97.7 1.3E-05 2.8E-10 58.3 0.6 35 105-146 1-35 (44)
24 PF13465 zf-H2C2_2: Zinc-finge 97.6 2.9E-05 6.2E-10 50.2 1.5 24 182-205 2-25 (26)
25 PHA00732 hypothetical protein 97.4 9.3E-05 2E-09 60.9 2.5 47 140-191 1-49 (79)
26 COG5189 SFP1 Putative transcri 97.3 0.00015 3.1E-09 73.0 2.5 72 60-162 346-420 (423)
27 PF05605 zf-Di19: Drought indu 97.2 0.00039 8.5E-09 52.8 3.3 47 141-190 3-53 (54)
28 PF00096 zf-C2H2: Zinc finger, 97.1 0.00029 6.3E-09 43.7 2.1 22 168-189 1-23 (23)
29 PF00096 zf-C2H2: Zinc finger, 97.1 0.00027 5.9E-09 43.9 1.8 23 64-86 1-23 (23)
30 PF13894 zf-C2H2_4: C2H2-type 96.8 0.0011 2.4E-08 40.8 2.5 23 168-190 1-24 (24)
31 PF05605 zf-Di19: Drought indu 96.7 0.0017 3.6E-08 49.4 3.1 52 63-136 2-53 (54)
32 PF13894 zf-C2H2_4: C2H2-type 96.6 0.0014 3.1E-08 40.3 2.2 24 64-87 1-24 (24)
33 PF13912 zf-C2H2_6: C2H2-type 96.6 0.00099 2.1E-08 43.0 1.4 24 167-190 1-25 (27)
34 PF12756 zf-C2H2_2: C2H2 type 96.6 0.0014 3.1E-08 54.7 2.7 67 119-189 6-73 (100)
35 KOG2231 Predicted E3 ubiquitin 96.6 0.002 4.4E-08 71.5 4.3 54 142-195 184-241 (669)
36 COG5048 FOG: Zn-finger [Genera 96.5 0.0012 2.5E-08 68.2 2.1 138 62-220 288-444 (467)
37 PF13912 zf-C2H2_6: C2H2-type 96.4 0.0021 4.5E-08 41.4 1.9 25 63-87 1-25 (27)
38 PF12756 zf-C2H2_2: C2H2 type 96.4 0.0017 3.6E-08 54.2 1.6 72 65-162 1-72 (100)
39 smart00355 ZnF_C2H2 zinc finge 95.4 0.013 2.9E-07 36.3 2.4 22 168-189 1-23 (26)
40 PF09237 GAGA: GAGA factor; I 95.4 0.0085 1.8E-07 44.9 1.6 31 137-167 21-52 (54)
41 smart00355 ZnF_C2H2 zinc finge 95.4 0.011 2.5E-07 36.6 2.0 24 64-87 1-24 (26)
42 COG5048 FOG: Zn-finger [Genera 95.3 0.0083 1.8E-07 61.9 1.9 148 35-201 289-453 (467)
43 KOG1146 Homeobox protein [Gene 95.3 0.009 2E-07 70.1 2.3 122 61-189 463-641 (1406)
44 COG5236 Uncharacterized conser 95.2 0.022 4.7E-07 58.3 4.3 108 64-191 152-276 (493)
45 PRK04860 hypothetical protein; 95.1 0.0092 2E-07 55.6 1.3 34 140-177 119-154 (160)
46 PRK04860 hypothetical protein; 94.7 0.012 2.6E-07 54.9 0.9 36 167-205 119-154 (160)
47 PF09237 GAGA: GAGA factor; I 94.4 0.039 8.4E-07 41.4 2.9 32 163-194 20-52 (54)
48 KOG1146 Homeobox protein [Gene 94.4 0.053 1.1E-06 64.0 5.4 28 102-136 462-489 (1406)
49 PF12874 zf-met: Zinc-finger o 94.0 0.031 6.8E-07 35.2 1.5 23 64-86 1-23 (25)
50 PF12874 zf-met: Zinc-finger o 92.9 0.058 1.3E-06 33.9 1.4 21 168-188 1-22 (25)
51 PF13909 zf-H2C2_5: C2H2-type 92.9 0.094 2E-06 32.8 2.3 22 168-190 1-23 (24)
52 PF12171 zf-C2H2_jaz: Zinc-fin 92.1 0.091 2E-06 33.9 1.6 22 141-162 2-23 (27)
53 COG5236 Uncharacterized conser 91.2 0.1 2.2E-06 53.6 1.6 88 106-204 152-254 (493)
54 PF12171 zf-C2H2_jaz: Zinc-fin 90.8 0.065 1.4E-06 34.6 -0.2 23 64-86 2-24 (27)
55 KOG2231 Predicted E3 ubiquitin 90.7 0.64 1.4E-05 52.2 7.3 120 64-198 116-275 (669)
56 PF13909 zf-H2C2_5: C2H2-type 89.7 0.21 4.5E-06 31.1 1.5 23 64-87 1-23 (24)
57 PF13913 zf-C2HC_2: zinc-finge 88.6 0.37 7.9E-06 30.8 2.0 20 169-189 4-24 (25)
58 KOG2893 Zn finger protein [Gen 88.1 0.15 3.2E-06 50.0 -0.0 37 119-159 17-53 (341)
59 KOG2482 Predicted C2H2-type Zn 86.8 0.67 1.5E-05 47.7 3.8 25 62-86 194-218 (423)
60 smart00451 ZnF_U1 U1-like zinc 86.0 0.59 1.3E-05 31.6 2.1 24 63-86 3-26 (35)
61 smart00451 ZnF_U1 U1-like zinc 84.8 0.73 1.6E-05 31.1 2.0 22 167-188 3-25 (35)
62 KOG2893 Zn finger protein [Gen 83.2 0.36 7.8E-06 47.4 -0.0 44 138-185 9-53 (341)
63 PF13913 zf-C2HC_2: zinc-finge 81.8 1.2 2.5E-05 28.5 1.9 21 64-85 3-23 (25)
64 KOG4173 Alpha-SNAP protein [In 81.7 0.48 1E-05 45.5 0.2 82 102-191 76-171 (253)
65 KOG4173 Alpha-SNAP protein [In 81.3 0.45 9.8E-06 45.7 -0.1 79 60-162 76-168 (253)
66 PRK00464 nrdR transcriptional 77.0 0.97 2.1E-05 41.9 0.7 13 141-153 29-41 (154)
67 PF12013 DUF3505: Protein of u 76.4 3.2 7E-05 35.8 3.7 24 168-191 81-109 (109)
68 KOG2482 Predicted C2H2-type Zn 75.9 3.3 7.2E-05 42.8 4.1 47 168-214 280-354 (423)
69 KOG2785 C2H2-type Zn-finger pr 75.6 3.5 7.6E-05 43.3 4.3 64 63-133 3-89 (390)
70 KOG2186 Cell growth-regulating 73.7 1.6 3.5E-05 43.3 1.3 55 140-196 3-58 (276)
71 COG4049 Uncharacterized protei 72.2 1.3 2.9E-05 33.9 0.2 26 137-162 14-39 (65)
72 COG4049 Uncharacterized protei 70.6 2.1 4.6E-05 32.8 1.0 29 163-191 13-42 (65)
73 PF09986 DUF2225: Uncharacteri 69.9 2 4.3E-05 41.9 0.9 22 139-160 4-25 (214)
74 COG1997 RPL43A Ribosomal prote 69.6 2.4 5.1E-05 35.5 1.2 34 103-153 33-66 (89)
75 PF09538 FYDLN_acid: Protein o 68.7 2.8 6.1E-05 36.6 1.5 13 166-178 25-38 (108)
76 KOG4377 Zn-finger protein [Gen 66.2 5.1 0.00011 42.4 3.1 116 63-192 271-429 (480)
77 KOG4124 Putative transcription 66.0 2 4.3E-05 44.5 0.0 29 57-86 207-236 (442)
78 COG4957 Predicted transcriptio 65.9 5.7 0.00012 35.9 2.9 22 63-87 76-97 (148)
79 COG1592 Rubrerythrin [Energy p 63.7 4.9 0.00011 37.8 2.2 26 103-148 132-157 (166)
80 cd00350 rubredoxin_like Rubred 61.6 5.4 0.00012 27.1 1.5 10 139-148 16-25 (33)
81 TIGR00622 ssl1 transcription f 57.6 7.5 0.00016 34.2 2.1 46 143-189 58-104 (112)
82 KOG2071 mRNA cleavage and poly 57.6 17 0.00036 40.5 5.2 30 58-87 413-442 (579)
83 PF04216 FdhE: Protein involve 56.6 1.7 3.7E-05 44.2 -2.4 33 141-173 212-245 (290)
84 PRK03564 formate dehydrogenase 55.7 9 0.0002 39.5 2.7 10 102-111 209-218 (309)
85 KOG4167 Predicted DNA-binding 54.9 7.8 0.00017 43.9 2.2 27 61-87 790-816 (907)
86 TIGR02098 MJ0042_CXXC MJ0042 f 54.9 8.3 0.00018 26.7 1.6 13 142-154 4-16 (38)
87 PF05443 ROS_MUCR: ROS/MUCR tr 54.4 7 0.00015 35.4 1.5 27 166-195 71-98 (132)
88 TIGR02300 FYDLN_acid conserved 54.2 7.5 0.00016 34.9 1.6 29 141-179 10-39 (129)
89 TIGR01562 FdhE formate dehydro 53.7 17 0.00036 37.6 4.2 11 102-112 207-217 (305)
90 PF09986 DUF2225: Uncharacteri 51.4 4.9 0.00011 39.2 -0.0 24 61-84 3-26 (214)
91 COG1198 PriA Primosomal protei 51.4 11 0.00025 43.2 2.8 23 139-175 461-484 (730)
92 PF04959 ARS2: Arsenite-resist 51.3 4.5 9.6E-05 39.6 -0.3 31 164-194 74-105 (214)
93 smart00614 ZnF_BED BED zinc fi 51.0 12 0.00026 27.7 2.0 19 169-187 20-44 (50)
94 smart00531 TFIIE Transcription 50.4 14 0.0003 33.8 2.8 15 140-154 99-113 (147)
95 PF05443 ROS_MUCR: ROS/MUCR tr 49.6 12 0.00027 33.8 2.2 25 60-87 69-93 (132)
96 PF13717 zinc_ribbon_4: zinc-r 48.8 14 0.0003 25.7 1.9 31 142-176 4-35 (36)
97 PRK04023 DNA polymerase II lar 48.4 41 0.00088 39.9 6.6 12 61-72 624-635 (1121)
98 PRK09678 DNA-binding transcrip 48.0 7.9 0.00017 31.4 0.7 8 142-149 3-10 (72)
99 PF06524 NOA36: NOA36 protein; 47.5 13 0.00028 37.3 2.2 24 166-189 208-232 (314)
100 TIGR00622 ssl1 transcription f 47.4 21 0.00045 31.5 3.2 74 138-213 13-100 (112)
101 PF02892 zf-BED: BED zinc fing 45.7 18 0.00038 25.8 2.2 26 60-85 13-42 (45)
102 TIGR00373 conserved hypothetic 44.0 12 0.00026 34.8 1.3 29 166-203 108-137 (158)
103 KOG2186 Cell growth-regulating 43.6 14 0.0003 36.9 1.8 22 64-86 4-25 (276)
104 PF13719 zinc_ribbon_5: zinc-r 43.3 17 0.00037 25.3 1.7 12 142-153 4-15 (37)
105 PRK00464 nrdR transcriptional 43.1 12 0.00027 34.7 1.3 44 37-80 2-45 (154)
106 PRK06266 transcription initiat 42.7 12 0.00025 35.6 1.0 28 166-202 116-144 (178)
107 KOG1280 Uncharacterized conser 42.3 13 0.00027 38.8 1.3 37 165-201 77-116 (381)
108 KOG4124 Putative transcription 41.0 7.9 0.00017 40.3 -0.4 26 60-85 346-373 (442)
109 COG3091 SprT Zn-dependent meta 39.5 16 0.00034 33.9 1.3 32 139-175 116-149 (156)
110 TIGR00373 conserved hypothetic 38.4 20 0.00044 33.2 1.9 32 137-176 106-138 (158)
111 PF09538 FYDLN_acid: Protein o 36.6 30 0.00066 30.2 2.6 34 32-76 6-39 (108)
112 TIGR02300 FYDLN_acid conserved 35.3 25 0.00055 31.6 1.9 19 139-157 25-43 (129)
113 COG1592 Rubrerythrin [Energy p 35.0 20 0.00044 33.7 1.3 10 140-149 134-143 (166)
114 PRK06266 transcription initiat 34.9 24 0.00051 33.5 1.8 32 138-177 115-147 (178)
115 PF01780 Ribosomal_L37ae: Ribo 34.6 15 0.00033 31.0 0.4 11 141-151 54-64 (90)
116 KOG2785 C2H2-type Zn-finger pr 34.6 38 0.00083 35.8 3.4 77 60-162 163-242 (390)
117 PF04959 ARS2: Arsenite-resist 34.3 21 0.00046 35.0 1.4 30 137-166 74-104 (214)
118 PRK00398 rpoP DNA-directed RNA 34.0 26 0.00056 25.4 1.5 10 140-149 21-30 (46)
119 PHA00626 hypothetical protein 33.8 21 0.00045 27.5 1.0 10 141-150 24-33 (59)
120 COG5151 SSL1 RNA polymerase II 33.6 29 0.00064 35.7 2.3 46 143-189 365-411 (421)
121 COG1996 RPC10 DNA-directed RNA 33.5 22 0.00047 26.7 1.0 8 141-148 25-32 (49)
122 KOG2593 Transcription initiati 32.6 32 0.0007 36.9 2.5 37 137-175 125-162 (436)
123 cd00729 rubredoxin_SM Rubredox 32.3 31 0.00068 23.6 1.6 10 139-148 17-26 (34)
124 PF02176 zf-TRAF: TRAF-type zi 32.1 20 0.00043 27.0 0.7 39 139-177 8-53 (60)
125 COG4957 Predicted transcriptio 31.7 22 0.00047 32.3 0.9 26 168-196 77-103 (148)
126 PF15135 UPF0515: Uncharacteri 29.8 62 0.0013 32.4 3.7 34 141-178 133-167 (278)
127 PF10263 SprT-like: SprT-like 29.7 23 0.00049 32.1 0.7 30 140-176 123-153 (157)
128 smart00731 SprT SprT homologue 29.7 30 0.00065 31.4 1.5 31 140-176 112-143 (146)
129 smart00531 TFIIE Transcription 29.4 39 0.00084 30.8 2.2 39 102-151 96-134 (147)
130 KOG2807 RNA polymerase II tran 28.5 58 0.0013 33.8 3.4 23 167-189 345-368 (378)
131 COG4530 Uncharacterized protei 27.4 30 0.00064 30.3 1.0 11 166-176 25-36 (129)
132 TIGR02605 CxxC_CxxC_SSSS putat 27.3 27 0.00059 25.7 0.7 10 139-148 25-34 (52)
133 PTZ00255 60S ribosomal protein 27.2 31 0.00068 29.2 1.0 14 139-152 53-66 (90)
134 smart00440 ZnF_C2C2 C2C2 Zinc 27.2 26 0.00057 24.8 0.5 9 168-176 29-38 (40)
135 COG1571 Predicted DNA-binding 27.1 34 0.00073 36.8 1.5 12 167-178 367-379 (421)
136 smart00659 RPOLCX RNA polymera 27.0 32 0.0007 25.1 1.0 10 141-150 3-12 (44)
137 COG1198 PriA Primosomal protei 26.9 25 0.00054 40.5 0.6 14 136-149 471-484 (730)
138 COG2888 Predicted Zn-ribbon RN 26.8 44 0.00096 26.1 1.7 9 166-174 49-58 (61)
139 PF05290 Baculo_IE-1: Baculovi 26.7 24 0.00053 31.9 0.3 12 142-153 123-134 (140)
140 PF15269 zf-C2H2_7: Zinc-finge 26.5 62 0.0013 23.9 2.3 24 63-86 20-43 (54)
141 PRK14714 DNA polymerase II lar 26.2 1E+02 0.0023 37.6 5.4 10 63-72 667-676 (1337)
142 COG0068 HypF Hydrogenase matur 26.1 16 0.00035 41.5 -1.1 53 143-201 126-180 (750)
143 KOG4377 Zn-finger protein [Gen 25.5 1.5E+02 0.0033 31.8 5.9 78 102-189 268-368 (480)
144 PRK04351 hypothetical protein; 25.2 39 0.00084 31.2 1.4 10 141-150 113-122 (149)
145 TIGR00280 L37a ribosomal prote 25.2 33 0.00072 29.1 0.9 12 140-151 53-64 (91)
146 KOG0320 Predicted E3 ubiquitin 25.2 41 0.00089 32.0 1.5 12 102-113 128-139 (187)
147 PRK04023 DNA polymerase II lar 25.0 55 0.0012 38.9 2.8 9 141-149 639-647 (1121)
148 PRK09678 DNA-binding transcrip 24.9 28 0.00061 28.2 0.4 20 137-156 24-45 (72)
149 PF07295 DUF1451: Protein of u 24.9 31 0.00067 31.8 0.7 16 134-149 102-121 (146)
150 KOG4167 Predicted DNA-binding 24.6 19 0.00042 40.9 -0.8 24 168-191 793-817 (907)
151 PF09416 UPF1_Zn_bind: RNA hel 24.3 41 0.00088 31.2 1.3 11 140-150 14-24 (152)
152 PRK14873 primosome assembly pr 23.9 48 0.001 37.9 2.1 26 135-175 405-431 (665)
153 smart00834 CxxC_CXXC_SSSS Puta 23.5 36 0.00078 23.5 0.7 9 140-148 26-34 (41)
154 PF01096 TFIIS_C: Transcriptio 23.4 16 0.00034 25.9 -1.2 9 168-176 29-38 (39)
155 smart00734 ZnF_Rad18 Rad18-lik 22.6 71 0.0015 20.5 1.8 20 64-84 2-21 (26)
156 PF04641 Rtf2: Rtf2 RING-finge 22.1 1.1E+02 0.0024 30.6 4.1 52 137-207 110-163 (260)
157 PF08238 Sel1: Sel1 repeat; I 22.0 67 0.0015 21.3 1.8 13 323-335 26-38 (39)
158 PRK14890 putative Zn-ribbon RN 22.0 62 0.0013 25.3 1.7 9 166-174 47-56 (59)
159 PF09723 Zn-ribbon_8: Zinc rib 22.0 51 0.0011 23.5 1.2 11 138-148 24-34 (42)
160 COG3357 Predicted transcriptio 21.9 38 0.00083 28.7 0.6 7 140-146 76-82 (97)
161 PRK03976 rpl37ae 50S ribosomal 21.7 42 0.00091 28.4 0.8 13 140-152 54-66 (90)
162 PF04810 zf-Sec23_Sec24: Sec23 21.7 44 0.00095 23.6 0.8 22 128-149 12-33 (40)
163 PF12760 Zn_Tnp_IS1595: Transp 21.6 67 0.0015 23.2 1.8 10 165-174 35-45 (46)
164 PRK14873 primosome assembly pr 21.0 34 0.00074 39.1 0.2 11 139-149 421-431 (665)
165 PF15269 zf-C2H2_7: Zinc-finge 20.8 73 0.0016 23.5 1.8 21 168-188 21-42 (54)
166 KOG2932 E3 ubiquitin ligase in 20.7 2.8E+02 0.006 28.9 6.5 44 142-191 125-172 (389)
167 KOG1280 Uncharacterized conser 20.4 52 0.0011 34.4 1.3 68 102-170 20-110 (381)
No 1
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.91 E-value=2.9e-25 Score=216.16 Aligned_cols=137 Identities=20% Similarity=0.429 Sum_probs=127.1
Q ss_pred CCCceecCccccccCChHHHHHHHHhcCCCcccccccccccccCceeecCCCcccCCCCCCccCChhhhhhhhccccCCc
Q 011334 60 ATNRFICEICNKGFQRDQNLQLHRRGHNLPWKLRQRTNKDVIKKKVYICPEKTCVHHEPSRALGDLTGIKKHFSRKHGEK 139 (488)
Q Consensus 60 ~~kpy~C~~CgK~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~~kpy~C~~C~C~~~~c~k~F~~~s~L~~H~r~HtgeK 139 (488)
...+|+|.+|||.+.+..+|.+|+.+|.. ...++.+.|++| +|.|...-.|+.|+|+|+ -
T Consensus 127 ~~~r~~c~eCgk~ysT~snLsrHkQ~H~~-----------~~s~ka~~C~~C-------~K~YvSmpALkMHirTH~--l 186 (279)
T KOG2462|consen 127 KHPRYKCPECGKSYSTSSNLSRHKQTHRS-----------LDSKKAFSCKYC-------GKVYVSMPALKMHIRTHT--L 186 (279)
T ss_pred cCCceeccccccccccccccchhhccccc-----------ccccccccCCCC-------CceeeehHHHhhHhhccC--C
Confidence 44579999999999999999999999961 124778999998 999999999999999998 6
Q ss_pred cccccccCccccchhhhhhhhcc-cCCcceecC-CCCccCChHHHHHHHHHhcCCCccchhhhchhccccCCCcccccC
Q 011334 140 KWKCEKCSKKYAVQSDWKAHSKT-CGTREYKCD-CGTLFSRKDSFITHRAFCDALAEESTRLASSVVAAASNLNFRTDH 216 (488)
Q Consensus 140 py~C~~Cgk~F~~ks~L~~H~rt-~geKpy~C~-CgKsFs~ks~L~~H~r~H~~~~~~~C~~C~~sf~~~s~L~~~~~~ 216 (488)
+++|.+|||.|.+..-|+-|+|+ +|||||.|. |+|.|..+++|+.||++|...+.|+|..|+|.|+..+.|+-|.+.
T Consensus 187 ~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 187 PCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred CcccccccccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhh
Confidence 79999999999999999999999 899999999 999999999999999999999999999999999999999977655
No 2
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.90 E-value=3.2e-24 Score=208.90 Aligned_cols=134 Identities=23% Similarity=0.408 Sum_probs=122.7
Q ss_pred ccCCCCCCCCCCCCchhHhhcCccccC---CCCceecCccccccCChHHHHHHHHhcCCCcccccccccccccCceeecC
Q 011334 33 ASKKKRNLPGTPDPDAEVIALSPKTLM---ATNRFICEICNKGFQRDQNLQLHRRGHNLPWKLRQRTNKDVIKKKVYICP 109 (488)
Q Consensus 33 ~~k~k~~~p~~~~~~~~~l~~~~k~~~---~~kpy~C~~CgK~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~~kpy~C~ 109 (488)
..+.++..|++......-+.+|+.+|. ..+.+.|++|+|.|.....|++|+|+|+ -+++|.
T Consensus 128 ~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~----------------l~c~C~ 191 (279)
T KOG2462|consen 128 HPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT----------------LPCECG 191 (279)
T ss_pred CCceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC----------------CCcccc
Confidence 446678889998888888899988885 4678999999999999999999999996 457888
Q ss_pred CCcccCCCCCCccCChhhhhhhhccccCCccccccccCccccchhhhhhhhcc-cCCcceecC-CCCccCChHHHHHHHH
Q 011334 110 EKTCVHHEPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAHSKT-CGTREYKCD-CGTLFSRKDSFITHRA 187 (488)
Q Consensus 110 ~C~C~~~~c~k~F~~~s~L~~H~r~HtgeKpy~C~~Cgk~F~~ks~L~~H~rt-~geKpy~C~-CgKsFs~ks~L~~H~r 187 (488)
+| ||.|.+.+-|+-|+|+|||||||.|..|+|.|+.+++|+.|++| .+.|+|+|. |+|+|.+++.|.+|..
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 577999999 9999999999999987
Q ss_pred Hh
Q 011334 188 FC 189 (488)
Q Consensus 188 ~H 189 (488)
.-
T Consensus 265 S~ 266 (279)
T KOG2462|consen 265 SA 266 (279)
T ss_pred hc
Confidence 63
No 3
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.75 E-value=5.4e-19 Score=191.81 Aligned_cols=56 Identities=18% Similarity=0.318 Sum_probs=51.1
Q ss_pred ccCCCCCCCCCCCCchhHhhcCccccCCCCceecCccccccCChHHHHHHHHhcCC
Q 011334 33 ASKKKRNLPGTPDPDAEVIALSPKTLMATNRFICEICNKGFQRDQNLQLHRRGHNL 88 (488)
Q Consensus 33 ~~k~k~~~p~~~~~~~~~l~~~~k~~~~~kpy~C~~CgK~F~~~~~L~~H~r~H~~ 88 (488)
--+.+|..|.+.+.....+..|-+.|++++||+|.+||..|.++.+|+.|...|+.
T Consensus 351 ~~khkCr~CakvfgS~SaLqiHlRSHTGERPfqCnvCG~~FSTkGNLKvH~~rH~e 406 (958)
T KOG1074|consen 351 FFKHKCRFCAKVFGSDSALQIHLRSHTGERPFQCNVCGNRFSTKGNLKVHFQRHRE 406 (958)
T ss_pred cccchhhhhHhhcCchhhhhhhhhccCCCCCeeecccccccccccceeeeeeeccc
Confidence 34678889999999999999999999999999999999999999999999888763
No 4
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.68 E-value=3.1e-17 Score=153.35 Aligned_cols=120 Identities=23% Similarity=0.530 Sum_probs=108.7
Q ss_pred CCCceecCccccccCChHHHHHHHHhcCCCcccccccccccccCceeecCCCcccCCCCCCccCChhhhhhhhccccCCc
Q 011334 60 ATNRFICEICNKGFQRDQNLQLHRRGHNLPWKLRQRTNKDVIKKKVYICPEKTCVHHEPSRALGDLTGIKKHFSRKHGEK 139 (488)
Q Consensus 60 ~~kpy~C~~CgK~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~~kpy~C~~C~C~~~~c~k~F~~~s~L~~H~r~HtgeK 139 (488)
+...|.|.+|+|.|.....|.+|++-|. ..|.|.|..| ||.|.+.-.|++|+|+|+|.+
T Consensus 114 d~d~ftCrvCgK~F~lQRmlnrh~kch~--------------~vkr~lct~c-------gkgfndtfdlkrh~rthtgvr 172 (267)
T KOG3576|consen 114 DQDSFTCRVCGKKFGLQRMLNRHLKCHS--------------DVKRHLCTFC-------GKGFNDTFDLKRHTRTHTGVR 172 (267)
T ss_pred CCCeeeeehhhhhhhHHHHHHHHhhhcc--------------HHHHHHHhhc-------cCcccchhhhhhhhccccCcc
Confidence 4567999999999999999999999997 7788999988 999999999999999999999
Q ss_pred cccccccCccccchhhhhhhhcc-cC-----------CcceecC-CCCccCChHHHHHHHHHhcCCCccchhhh
Q 011334 140 KWKCEKCSKKYAVQSDWKAHSKT-CG-----------TREYKCD-CGTLFSRKDSFITHRAFCDALAEESTRLA 200 (488)
Q Consensus 140 py~C~~Cgk~F~~ks~L~~H~rt-~g-----------eKpy~C~-CgKsFs~ks~L~~H~r~H~~~~~~~C~~C 200 (488)
||+|..|+|.|..+-.|..|.+. || +|-|.|+ ||.+-.+...+..|++.||...++--+.-
T Consensus 173 pykc~~c~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~SpallKfs 246 (267)
T KOG3576|consen 173 PYKCSLCEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFSPALLKFS 246 (267)
T ss_pred ccchhhhhHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCCHHHHHHH
Confidence 99999999999999999999887 75 3669999 99999999999999999998776644443
No 5
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.58 E-value=6.6e-16 Score=154.46 Aligned_cols=183 Identities=16% Similarity=0.252 Sum_probs=148.9
Q ss_pred CCCCCCCCCCCCchhHhhcCccccCCCCceecCccccccCChHHHHHHHHhcC----CCccccccccccc----------
Q 011334 35 KKKRNLPGTPDPDAEVIALSPKTLMATNRFICEICNKGFQRDQNLQLHRRGHN----LPWKLRQRTNKDV---------- 100 (488)
Q Consensus 35 k~k~~~p~~~~~~~~~l~~~~k~~~~~kpy~C~~CgK~F~~~~~L~~H~r~H~----~p~~~~~~~~~~~---------- 100 (488)
..+-.-|.....++..++.|.+.|.++|...|+.||.-|.++..|-.|.+.-+ .++.|..+.+...
T Consensus 179 ~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~ 258 (467)
T KOG3608|consen 179 MCNWAMCTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVV 258 (467)
T ss_pred eccchhhhhhhccHHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHH
Confidence 34445677777888999999999999999999999999999999999987765 3444443332211
Q ss_pred ccCceeecCCCcccCCCCCCccCChhhhhhhhc-cccCCccccccccCccccchhhhhhhhcccCCcceecC---CCCcc
Q 011334 101 IKKKVYICPEKTCVHHEPSRALGDLTGIKKHFS-RKHGEKKWKCEKCSKKYAVQSDWKAHSKTCGTREYKCD---CGTLF 176 (488)
Q Consensus 101 ~~~kpy~C~~C~C~~~~c~k~F~~~s~L~~H~r-~HtgeKpy~C~~Cgk~F~~ks~L~~H~rt~geKpy~C~---CgKsF 176 (488)
....-|+|+.| .......+.|.+|++ +|..+|||+|+.|++.|.+.++|.+|..+|.+-.|+|+ |..+|
T Consensus 259 rHvn~ykCplC-------dmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS~~~y~C~h~~C~~s~ 331 (467)
T KOG3608|consen 259 RHVNCYKCPLC-------DMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHSKTVYQCEHPDCHYSV 331 (467)
T ss_pred Hhhhccccccc-------ccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhccccceecCCCCCcHHH
Confidence 12346889888 888899999999998 57788999999999999999999999999888889997 99999
Q ss_pred CChHHHHHHHHHhc-C--CCccchhhhchhccccCCCcccc--cCCCCCCCCC
Q 011334 177 SRKDSFITHRAFCD-A--LAEESTRLASSVVAAASNLNFRT--DHTVNLPQGV 224 (488)
Q Consensus 177 s~ks~L~~H~r~H~-~--~~~~~C~~C~~sf~~~s~L~~~~--~~~~~~~~~~ 224 (488)
++...+++|++-+| + ..+|+|..|.+.|++.-+|..|. +|...+|.+.
T Consensus 332 r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~kkH~f~~PsGh 384 (467)
T KOG3608|consen 332 RTYTQMRRHFLEVHEGNNPILYACHCCDRFFTSGKSLSAHLMKKHGFRLPSGH 384 (467)
T ss_pred HHHHHHHHHHHHhccCCCCCceeeecchhhhccchhHHHHHHHhhcccCCCCC
Confidence 99999999998877 3 45689999999999998888554 4444455543
No 6
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.56 E-value=1.8e-15 Score=164.71 Aligned_cols=53 Identities=28% Similarity=0.585 Sum_probs=50.3
Q ss_pred ceecCccccccCChHHHHHHHHhcCCCcccccccccccccCceeecCCCcccCCCCCCccCChhhhhhhhcccc
Q 011334 63 RFICEICNKGFQRDQNLQLHRRGHNLPWKLRQRTNKDVIKKKVYICPEKTCVHHEPSRALGDLTGIKKHFSRKH 136 (488)
Q Consensus 63 py~C~~CgK~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~~kpy~C~~C~C~~~~c~k~F~~~s~L~~H~r~Ht 136 (488)
+++|.+|.|.|...+.|+.|.|.|+ +++||+|.+| +..|.++.+|+.|..+|+
T Consensus 353 khkCr~CakvfgS~SaLqiHlRSHT--------------GERPfqCnvC-------G~~FSTkGNLKvH~~rH~ 405 (958)
T KOG1074|consen 353 KHKCRFCAKVFGSDSALQIHLRSHT--------------GERPFQCNVC-------GNRFSTKGNLKVHFQRHR 405 (958)
T ss_pred cchhhhhHhhcCchhhhhhhhhccC--------------CCCCeeeccc-------ccccccccceeeeeeecc
Confidence 5789999999999999999999998 9999999999 999999999999988776
No 7
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.43 E-value=3.4e-14 Score=152.53 Aligned_cols=107 Identities=22% Similarity=0.511 Sum_probs=94.2
Q ss_pred ceecCccccccCChHHHHHHHHhcCCCcccccccccccccCceeecCCCcccCCCCCCccCChhhhhhhhcccc------
Q 011334 63 RFICEICNKGFQRDQNLQLHRRGHNLPWKLRQRTNKDVIKKKVYICPEKTCVHHEPSRALGDLTGIKKHFSRKH------ 136 (488)
Q Consensus 63 py~C~~CgK~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~~kpy~C~~C~C~~~~c~k~F~~~s~L~~H~r~Ht------ 136 (488)
...|++|.+.+++...|+.|++.-+. ..+.-|.|..| ...|.++..|.+|+.+|.
T Consensus 210 lltcpycdrgykrltslkeHikyrhe------------kne~nfsC~lC-------sytFAyRtQLErhm~~hkpg~dqa 270 (1007)
T KOG3623|consen 210 LLTCPYCDRGYKRLTSLKEHIKYRHE------------KNEPNFSCMLC-------SYTFAYRTQLERHMQLHKPGGDQA 270 (1007)
T ss_pred hhcchhHHHHHHHHHHHHHHHHHHHh------------hCCCCCcchhh-------hhhhhhHHHHHHHHHhhcCCCccc
Confidence 36799999999999999999876431 34667889998 899999999999999885
Q ss_pred -------CCccccccccCccccchhhhhhhhcc-cCCcceecC-CCCccCChHHHHHHHHH
Q 011334 137 -------GEKKWKCEKCSKKYAVQSDWKAHSKT-CGTREYKCD-CGTLFSRKDSFITHRAF 188 (488)
Q Consensus 137 -------geKpy~C~~Cgk~F~~ks~L~~H~rt-~geKpy~C~-CgKsFs~ks~L~~H~r~ 188 (488)
.-|.|+|.+|+|.|+.+.+|+.|+|+ .|||||.|+ |+|+|+....+..||-.
T Consensus 271 ~sltqsa~lRKFKCtECgKAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmSS 331 (1007)
T KOG3623|consen 271 ISLTQSALLRKFKCTECGKAFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMSS 331 (1007)
T ss_pred ccccchhhhccccccccchhhhhHHHHHhhheeecCCCCcCCcccccccccCCcccccccc
Confidence 24679999999999999999999999 699999999 99999999999999853
No 8
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.37 E-value=9e-14 Score=149.36 Aligned_cols=80 Identities=19% Similarity=0.417 Sum_probs=52.7
Q ss_pred CccccccccCccccchhhhhhhhcc-cCCcceecC-CCCccCChHHHHHHHHHhcCCCccchhhhchhccccCCCccccc
Q 011334 138 EKKWKCEKCSKKYAVQSDWKAHSKT-CGTREYKCD-CGTLFSRKDSFITHRAFCDALAEESTRLASSVVAAASNLNFRTD 215 (488)
Q Consensus 138 eKpy~C~~Cgk~F~~ks~L~~H~rt-~geKpy~C~-CgKsFs~ks~L~~H~r~H~~~~~~~C~~C~~sf~~~s~L~~~~~ 215 (488)
+.+|.|+.|+|.|...+.|.||... +|.|||+|. |.|.|..+.+|..|+|.|.+++||.|..|+|+|.+.+++..|+-
T Consensus 892 ~gmyaCDqCDK~FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQCdKClKRFSHSGSYSQHMN 971 (1007)
T KOG3623|consen 892 DGMYACDQCDKAFQKQSSLARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQCDKCLKRFSHSGSYSQHMN 971 (1007)
T ss_pred cccchHHHHHHHHHhhHHHHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhhhccCCCcchhhhhhhhcccccchHhhhc
Confidence 4456666666666666666666655 566666666 66666666666666666666666666666666666666666665
Q ss_pred CC
Q 011334 216 HT 217 (488)
Q Consensus 216 ~~ 217 (488)
|.
T Consensus 972 HR 973 (1007)
T KOG3623|consen 972 HR 973 (1007)
T ss_pred cc
Confidence 53
No 9
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.35 E-value=9.9e-14 Score=130.04 Aligned_cols=107 Identities=19% Similarity=0.339 Sum_probs=91.8
Q ss_pred cCceeecCCCcccCCCCCCccCChhhhhhhhccccCCccccccccCccccchhhhhhhhcc-cCCcceecC-CCCccCCh
Q 011334 102 KKKVYICPEKTCVHHEPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAHSKT-CGTREYKCD-CGTLFSRK 179 (488)
Q Consensus 102 ~~kpy~C~~C~C~~~~c~k~F~~~s~L~~H~r~HtgeKpy~C~~Cgk~F~~ks~L~~H~rt-~geKpy~C~-CgKsFs~k 179 (488)
....|.|.+| +|.|....-|.+|++-|...|.|-|..|||.|...-+|++|+|+ +|.|||+|. |+|.|..+
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 4567999998 99999999999999999999999999999999999999999999 899999999 99999999
Q ss_pred HHHHHHHHHhcC-----------CCccchhhhchhccccCCCccccc
Q 011334 180 DSFITHRAFCDA-----------LAEESTRLASSVVAAASNLNFRTD 215 (488)
Q Consensus 180 s~L~~H~r~H~~-----------~~~~~C~~C~~sf~~~s~L~~~~~ 215 (488)
-.|..|.+..|+ .+.|.|+.|+..-.....+-.|..
T Consensus 187 csleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~ 233 (267)
T KOG3576|consen 187 CSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLK 233 (267)
T ss_pred ccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHH
Confidence 999999876554 456789999965444333333433
No 10
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.30 E-value=7.7e-13 Score=132.68 Aligned_cols=146 Identities=17% Similarity=0.291 Sum_probs=92.4
Q ss_pred ceecCc--cccccCChHHHHHHHHhcCCCcccc---------ccc-------ccccccCceeecCCCcccCCCCCCccCC
Q 011334 63 RFICEI--CNKGFQRDQNLQLHRRGHNLPWKLR---------QRT-------NKDVIKKKVYICPEKTCVHHEPSRALGD 124 (488)
Q Consensus 63 py~C~~--CgK~F~~~~~L~~H~r~H~~p~~~~---------~~~-------~~~~~~~kpy~C~~C~C~~~~c~k~F~~ 124 (488)
.+.|.. |-+.|..+..|++|.|.|+...... .++ ........+|.|..| .|.|.+
T Consensus 177 v~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C-------~KrFaT 249 (467)
T KOG3608|consen 177 VTMCNWAMCTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQC-------FKRFAT 249 (467)
T ss_pred eeeccchhhhhhhccHHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHH-------HHHHhH
Confidence 467865 9999999999999999998322110 000 000122335555555 566666
Q ss_pred hhhhhhhhccccCCccccccccCccccchhhhhhhhcc-c-CCcceecC-CCCccCChHHHHHHHHHhcCCCccchhh--
Q 011334 125 LTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAHSKT-C-GTREYKCD-CGTLFSRKDSFITHRAFCDALAEESTRL-- 199 (488)
Q Consensus 125 ~s~L~~H~r~HtgeKpy~C~~Cgk~F~~ks~L~~H~rt-~-geKpy~C~-CgKsFs~ks~L~~H~r~H~~~~~~~C~~-- 199 (488)
...|+.|+++|-. -|+|+.|+.+....+.|.+|++. | ..|||+|+ |.+.|.+.+.|.+|..+|. +..|.|+.
T Consensus 250 eklL~~Hv~rHvn--~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~ 326 (467)
T KOG3608|consen 250 EKLLKSHVVRHVN--CYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPD 326 (467)
T ss_pred HHHHHHHHHHhhh--cccccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhcc-ccceecCCCC
Confidence 6666666666642 36677777777777777777666 3 45777777 7777777777777777665 55667766
Q ss_pred hchhccccCCCcccccCCC
Q 011334 200 ASSVVAAASNLNFRTDHTV 218 (488)
Q Consensus 200 C~~sf~~~s~L~~~~~~~~ 218 (488)
|..+|.....+..|...++
T Consensus 327 C~~s~r~~~q~~~H~~evh 345 (467)
T KOG3608|consen 327 CHYSVRTYTQMRRHFLEVH 345 (467)
T ss_pred CcHHHHHHHHHHHHHHHhc
Confidence 7766666666665554433
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.13 E-value=7.6e-11 Score=127.61 Aligned_cols=81 Identities=20% Similarity=0.435 Sum_probs=39.7
Q ss_pred CCccCChhhhhhhhccccCCccccccccCccccchhhhhhhhcc-cCCcceecC-CCCccC----------ChHHHHHHH
Q 011334 119 SRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAHSKT-CGTREYKCD-CGTLFS----------RKDSFITHR 186 (488)
Q Consensus 119 ~k~F~~~s~L~~H~r~HtgeKpy~C~~Cgk~F~~ks~L~~H~rt-~geKpy~C~-CgKsFs----------~ks~L~~H~ 186 (488)
++.|. ...|..|+++|+ +++.|+ |++.+ .+..|..|+++ +.+|++.|. |++.|. +...|..|.
T Consensus 460 gk~f~-~s~LekH~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE 534 (567)
T PLN03086 460 GQAFQ-QGEMEKHMKVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHE 534 (567)
T ss_pred CCccc-hHHHHHHHHhcC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHH
Confidence 44443 344555555543 455555 55433 34455555544 455555555 555553 123455555
Q ss_pred HHhcCCCccchhhhchhcc
Q 011334 187 AFCDALAEESTRLASSVVA 205 (488)
Q Consensus 187 r~H~~~~~~~C~~C~~sf~ 205 (488)
..| +.+++.|..|++.+.
T Consensus 535 ~~C-G~rt~~C~~Cgk~Vr 552 (567)
T PLN03086 535 SIC-GSRTAPCDSCGRSVM 552 (567)
T ss_pred Hhc-CCcceEccccCCeee
Confidence 553 455555555554443
No 12
>PHA00733 hypothetical protein
Probab=98.95 E-value=6e-10 Score=99.79 Aligned_cols=83 Identities=17% Similarity=0.292 Sum_probs=68.3
Q ss_pred cCceeecCCCcccCCCCCCccCChhhhh------hhhccccCCccccccccCccccchhhhhhhhcccCCcceecC-CCC
Q 011334 102 KKKVYICPEKTCVHHEPSRALGDLTGIK------KHFSRKHGEKKWKCEKCSKKYAVQSDWKAHSKTCGTREYKCD-CGT 174 (488)
Q Consensus 102 ~~kpy~C~~C~C~~~~c~k~F~~~s~L~------~H~r~HtgeKpy~C~~Cgk~F~~ks~L~~H~rt~geKpy~C~-CgK 174 (488)
..+++.|.+| .+.|.....|. +|+. +++++||.|+.|++.|.....|..|++.+ +++|.|. |++
T Consensus 37 ~~~~~~~~~~-------~~~~~~~~~l~~~~~l~~~~~-~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h-~~~~~C~~CgK 107 (128)
T PHA00733 37 EQKRLIRAVV-------KTLIYNPQLLDESSYLYKLLT-SKAVSPYVCPLCLMPFSSSVSLKQHIRYT-EHSKVCPVCGK 107 (128)
T ss_pred hhhhHHHHHH-------hhhccChhhhcchHHHHhhcc-cCCCCCccCCCCCCcCCCHHHHHHHHhcC-CcCccCCCCCC
Confidence 5788999998 66665554444 4433 34589999999999999999999999875 5689999 999
Q ss_pred ccCChHHHHHHHHHhcCCC
Q 011334 175 LFSRKDSFITHRAFCDALA 193 (488)
Q Consensus 175 sFs~ks~L~~H~r~H~~~~ 193 (488)
.|.....|.+|++..|++.
T Consensus 108 ~F~~~~sL~~H~~~~h~~~ 126 (128)
T PHA00733 108 EFRNTDSTLDHVCKKHNIC 126 (128)
T ss_pred ccCCHHHHHHHHHHhcCcc
Confidence 9999999999999988753
No 13
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.94 E-value=1.5e-09 Score=117.65 Aligned_cols=104 Identities=22% Similarity=0.441 Sum_probs=88.3
Q ss_pred CCceecCccccccCChHHHHHHHHhcCCCcccccccccccccCceeecCCCcccCCCCCCccCChhhhhhhhccccCCcc
Q 011334 61 TNRFICEICNKGFQRDQNLQLHRRGHNLPWKLRQRTNKDVIKKKVYICPEKTCVHHEPSRALGDLTGIKKHFSRKHGEKK 140 (488)
Q Consensus 61 ~kpy~C~~CgK~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~~kpy~C~~C~C~~~~c~k~F~~~s~L~~H~r~HtgeKp 140 (488)
++.+.|+.|++.|. ...|..|++.|+ ++|.|+ | ++.+ .+..|..|+.+|..+|+
T Consensus 451 ~~H~~C~~Cgk~f~-~s~LekH~~~~H----------------kpv~Cp-C-------g~~~-~R~~L~~H~~thCp~Kp 504 (567)
T PLN03086 451 KNHVHCEKCGQAFQ-QGEMEKHMKVFH----------------EPLQCP-C-------GVVL-EKEQMVQHQASTCPLRL 504 (567)
T ss_pred ccCccCCCCCCccc-hHHHHHHHHhcC----------------CCccCC-C-------CCCc-chhHHHhhhhccCCCCc
Confidence 45689999999996 678999999985 578998 7 7655 67899999999999999
Q ss_pred ccccccCcccc----------chhhhhhhhcccCCcceecC-CCCccCChHHHHHHHHHhcC
Q 011334 141 WKCEKCSKKYA----------VQSDWKAHSKTCGTREYKCD-CGTLFSRKDSFITHRAFCDA 191 (488)
Q Consensus 141 y~C~~Cgk~F~----------~ks~L~~H~rt~geKpy~C~-CgKsFs~ks~L~~H~r~H~~ 191 (488)
+.|..|++.|. ....|..|+.++|.+++.|. ||+.|..+ .|..|+..+|.
T Consensus 505 i~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~CG~rt~~C~~Cgk~Vrlr-dm~~H~~~~h~ 565 (567)
T PLN03086 505 ITCRFCGDMVQAGGSAMDVRDRLRGMSEHESICGSRTAPCDSCGRSVMLK-EMDIHQIAVHQ 565 (567)
T ss_pred eeCCCCCCccccCccccchhhhhhhHHHHHHhcCCcceEccccCCeeeeh-hHHHHHHHhhc
Confidence 99999999995 24589999999999999999 99988665 67889887765
No 14
>PHA00733 hypothetical protein
Probab=98.79 E-value=3.7e-09 Score=94.70 Aligned_cols=97 Identities=15% Similarity=0.152 Sum_probs=76.6
Q ss_pred hhHhhcCccccCCCCceecCccccccCChHHHHHH--HHhcCCCcccccccccccccCceeecCCCcccCCCCCCccCCh
Q 011334 48 AEVIALSPKTLMATNRFICEICNKGFQRDQNLQLH--RRGHNLPWKLRQRTNKDVIKKKVYICPEKTCVHHEPSRALGDL 125 (488)
Q Consensus 48 ~~~l~~~~k~~~~~kpy~C~~CgK~F~~~~~L~~H--~r~H~~p~~~~~~~~~~~~~~kpy~C~~C~C~~~~c~k~F~~~ 125 (488)
.+.+........+.+++.|.+|.+.|.....|..| ++.|. .....++|.|+.| ++.|...
T Consensus 25 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~-----------~~~~~kPy~C~~C-------gk~Fss~ 86 (128)
T PHA00733 25 LEELKRYHSLTPEQKRLIRAVVKTLIYNPQLLDESSYLYKLL-----------TSKAVSPYVCPLC-------LMPFSSS 86 (128)
T ss_pred HHHhhhhhcCChhhhhHHHHHHhhhccChhhhcchHHHHhhc-----------ccCCCCCccCCCC-------CCcCCCH
Confidence 33444444444557889999999999998888777 33331 0125789999998 9999999
Q ss_pred hhhhhhhccccCCccccccccCccccchhhhhhhhcc-cC
Q 011334 126 TGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAHSKT-CG 164 (488)
Q Consensus 126 s~L~~H~r~HtgeKpy~C~~Cgk~F~~ks~L~~H~rt-~g 164 (488)
..|..|++.| +++|.|..|++.|.....|.+|+.. |+
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 4679999999999999999999987 65
No 15
>PHA02768 hypothetical protein; Provisional
Probab=98.52 E-value=2.8e-08 Score=75.50 Aligned_cols=18 Identities=33% Similarity=0.720 Sum_probs=6.8
Q ss_pred CCCccCChHHHHHHHHHh
Q 011334 172 CGTLFSRKDSFITHRAFC 189 (488)
Q Consensus 172 CgKsFs~ks~L~~H~r~H 189 (488)
|||.|.+.++|..|+++|
T Consensus 11 CGK~Fs~~~~L~~H~r~H 28 (55)
T PHA02768 11 CGEIYIKRKSMITHLRKH 28 (55)
T ss_pred hCCeeccHHHHHHHHHhc
Confidence 333333333333333333
No 16
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.50 E-value=1.3e-08 Score=104.87 Aligned_cols=133 Identities=17% Similarity=0.241 Sum_probs=95.3
Q ss_pred ceecCccccccCChHHHHHHHHhcCCCcccccccccccccCceeecCCCcccCCCCCCccCChhhhhhhhccccC-----
Q 011334 63 RFICEICNKGFQRDQNLQLHRRGHNLPWKLRQRTNKDVIKKKVYICPEKTCVHHEPSRALGDLTGIKKHFSRKHG----- 137 (488)
Q Consensus 63 py~C~~CgK~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~~kpy~C~~C~C~~~~c~k~F~~~s~L~~H~r~Htg----- 137 (488)
.|+|..|...|...-.|.+|+-.-. -.-.|+|++| +|.|....+|..|+|.|.-
T Consensus 267 dyiCqLCK~kYeD~F~LAQHrC~RI--------------V~vEYrCPEC-------~KVFsCPANLASHRRWHKPR~eaa 325 (500)
T KOG3993|consen 267 DYICQLCKEKYEDAFALAQHRCPRI--------------VHVEYRCPEC-------DKVFSCPANLASHRRWHKPRPEAA 325 (500)
T ss_pred HHHHHHHHHhhhhHHHHhhccCCee--------------EEeeecCCcc-------cccccCchhhhhhhcccCCchhhh
Confidence 3999999999999999999874432 3456999999 9999999999999999851
Q ss_pred ---C-------------------------ccccccccCccccchhhhhhhhcccCCcc----------------------
Q 011334 138 ---E-------------------------KKWKCEKCSKKYAVQSDWKAHSKTCGTRE---------------------- 167 (488)
Q Consensus 138 ---e-------------------------Kpy~C~~Cgk~F~~ks~L~~H~rt~geKp---------------------- 167 (488)
. .-|.|.+|+|+|.++..|+.|+.+|...+
T Consensus 326 ~a~~~P~k~~~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~ 405 (500)
T KOG3993|consen 326 KAGSPPPKQAVETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQ 405 (500)
T ss_pred hcCCCChhhhhhhhhhhhhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhccccccccc
Confidence 1 13789999999999999998866532110
Q ss_pred -------------------------eecC-CCCccCChHHHHHHHHHhcCCCccchhhhchhccccCCCcccccC
Q 011334 168 -------------------------YKCD-CGTLFSRKDSFITHRAFCDALAEESTRLASSVVAAASNLNFRTDH 216 (488)
Q Consensus 168 -------------------------y~C~-CgKsFs~ks~L~~H~r~H~~~~~~~C~~C~~sf~~~s~L~~~~~~ 216 (488)
..|+ |+-.+..+..--.|.|.-+....|.|++|...|.....|..|...
T Consensus 406 ~~a~h~~a~~~~g~~vl~~a~sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~ 480 (500)
T KOG3993|consen 406 AVATHSSASDSHGDEVLYVAGSAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINK 480 (500)
T ss_pred ccccccccccccccceeeeeccccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhh
Confidence 1234 555555555555555555566667777777777666666654433
No 17
>PHA02768 hypothetical protein; Provisional
Probab=98.46 E-value=8.5e-08 Score=72.84 Aligned_cols=43 Identities=19% Similarity=0.466 Sum_probs=39.7
Q ss_pred cccccccCccccchhhhhhhhcccCCcceecC-CCCccCChHHHH
Q 011334 140 KWKCEKCSKKYAVQSDWKAHSKTCGTREYKCD-CGTLFSRKDSFI 183 (488)
Q Consensus 140 py~C~~Cgk~F~~ks~L~~H~rt~geKpy~C~-CgKsFs~ks~L~ 183 (488)
-|+|++||+.|.+.++|..|+++|. ++|+|. |+|.|.+.+.|.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~-k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN-TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC-CcccCCcccceecccceeE
Confidence 3899999999999999999999976 899999 999999988775
No 18
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.35 E-value=1.1e-07 Score=98.13 Aligned_cols=144 Identities=17% Similarity=0.249 Sum_probs=100.2
Q ss_pred CCCCCCCCchhHhhcCccccCCCCceecCccccccCChHHHHHHHHhcCCCccc---------ccc------------cc
Q 011334 39 NLPGTPDPDAEVIALSPKTLMATNRFICEICNKGFQRDQNLQLHRRGHNLPWKL---------RQR------------TN 97 (488)
Q Consensus 39 ~~p~~~~~~~~~l~~~~k~~~~~kpy~C~~CgK~F~~~~~L~~H~r~H~~p~~~---------~~~------------~~ 97 (488)
.+|.....+.-.++.|+-...-.--|+|++|+|.|....+|..|+|.|. |..- ++. ..
T Consensus 271 qLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHK-PR~eaa~a~~~P~k~~~~~rae~~ea~rsg 349 (500)
T KOG3993|consen 271 QLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHK-PRPEAAKAGSPPPKQAVETRAEVQEAERSG 349 (500)
T ss_pred HHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccC-CchhhhhcCCCChhhhhhhhhhhhhccccC
Confidence 3444444444455555554444456999999999999999999999996 2110 000 00
Q ss_pred cccccCceeecCCCcccCCCCCCccCChhhhhhhhccccCC---------------------------------------
Q 011334 98 KDVIKKKVYICPEKTCVHHEPSRALGDLTGIKKHFSRKHGE--------------------------------------- 138 (488)
Q Consensus 98 ~~~~~~kpy~C~~C~C~~~~c~k~F~~~s~L~~H~r~Htge--------------------------------------- 138 (488)
.. .....|.|.+| +|.|.+...|++|+.+|+..
T Consensus 350 ~d-ss~gi~~C~~C-------~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~v 421 (500)
T KOG3993|consen 350 DD-SSSGIFSCHTC-------GKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEV 421 (500)
T ss_pred Cc-ccCceeecHHh-------hhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccccccccccce
Confidence 00 22347999998 99999999999998877620
Q ss_pred -------ccccccccCccccchhhhhhhhcc-cCCcceecC-CCCccCChHHHHHHHHHhcC
Q 011334 139 -------KKWKCEKCSKKYAVQSDWKAHSKT-CGTREYKCD-CGTLFSRKDSFITHRAFCDA 191 (488)
Q Consensus 139 -------Kpy~C~~Cgk~F~~ks~L~~H~rt-~geKpy~C~-CgKsFs~ks~L~~H~r~H~~ 191 (488)
....|+.|+-.+..+..--.|.+. +.+.-|.|. |--.|.....|.+|...+|-
T Consensus 422 l~~a~sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~Hp 483 (500)
T KOG3993|consen 422 LYVAGSAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCHP 483 (500)
T ss_pred eeeeccccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcCh
Confidence 012356667666666665666665 666779999 99999999999999988764
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=98.23 E-value=3.2e-07 Score=59.41 Aligned_cols=26 Identities=31% Similarity=0.824 Sum_probs=22.6
Q ss_pred hhhhhhccccCCccccccccCccccc
Q 011334 127 GIKKHFSRKHGEKKWKCEKCSKKYAV 152 (488)
Q Consensus 127 ~L~~H~r~HtgeKpy~C~~Cgk~F~~ 152 (488)
+|.+|+++|+++|||+|++|++.|.+
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 47889999999999999999998863
No 20
>PHA00616 hypothetical protein
Probab=97.79 E-value=8.6e-06 Score=59.16 Aligned_cols=35 Identities=23% Similarity=0.427 Sum_probs=26.4
Q ss_pred ceecC-CCCccCChHHHHHHHHHhcCCCccchhhhc
Q 011334 167 EYKCD-CGTLFSRKDSFITHRAFCDALAEESTRLAS 201 (488)
Q Consensus 167 py~C~-CgKsFs~ks~L~~H~r~H~~~~~~~C~~C~ 201 (488)
||+|. ||+.|..++.|.+|++.||+++++.|+.--
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~~y 36 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEYFY 36 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeEEE
Confidence 57787 888888888888888888887777776543
No 21
>PHA00732 hypothetical protein
Probab=97.71 E-value=1.8e-05 Score=65.12 Aligned_cols=38 Identities=26% Similarity=0.383 Sum_probs=18.6
Q ss_pred CCccCChhhhhhhhcc-ccCCccccccccCccccchhhhhhhhcc
Q 011334 119 SRALGDLTGIKKHFSR-KHGEKKWKCEKCSKKYAVQSDWKAHSKT 162 (488)
Q Consensus 119 ~k~F~~~s~L~~H~r~-HtgeKpy~C~~Cgk~F~~ks~L~~H~rt 162 (488)
++.|.....|+.|++. |+ ++.|+.|++.|. .|..|.++
T Consensus 8 gk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~ 46 (79)
T PHA00732 8 GFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFYS 46 (79)
T ss_pred CCccCCHHHHHHHhhcccC---CCccCCCCCEeC---Chhhhhcc
Confidence 5555555555555543 32 234555555554 34445443
No 22
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.67 E-value=1.6e-05 Score=79.67 Aligned_cols=50 Identities=30% Similarity=0.646 Sum_probs=30.2
Q ss_pred Cccccccc--cCccccchhhhhhhhcc-c-------------------CCcceecC-CCCccCChHHHHHHHH
Q 011334 138 EKKWKCEK--CSKKYAVQSDWKAHSKT-C-------------------GTREYKCD-CGTLFSRKDSFITHRA 187 (488)
Q Consensus 138 eKpy~C~~--Cgk~F~~ks~L~~H~rt-~-------------------geKpy~C~-CgKsFs~ks~L~~H~r 187 (488)
+|||+|++ |.|+|+..-.|+.|+.. | ..|||+|+ |+|+|..-..|+-|+.
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 35555543 55555555555555443 2 23777777 7777777777777754
No 23
>PHA00616 hypothetical protein
Probab=97.66 E-value=1.3e-05 Score=58.29 Aligned_cols=35 Identities=17% Similarity=0.259 Sum_probs=20.8
Q ss_pred eeecCCCcccCCCCCCccCChhhhhhhhccccCCcccccccc
Q 011334 105 VYICPEKTCVHHEPSRALGDLTGIKKHFSRKHGEKKWKCEKC 146 (488)
Q Consensus 105 py~C~~C~C~~~~c~k~F~~~s~L~~H~r~HtgeKpy~C~~C 146 (488)
||+|..| |+.|..+..|.+|++.||+++++.|+.-
T Consensus 1 pYqC~~C-------G~~F~~~s~l~~H~r~~hg~~~~~~~~~ 35 (44)
T PHA00616 1 MYQCLRC-------GGIFRKKKEVIEHLLSVHKQNKLTLEYF 35 (44)
T ss_pred CCccchh-------hHHHhhHHHHHHHHHHhcCCCccceeEE
Confidence 3555555 6666666666666666666666665543
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=97.60 E-value=2.9e-05 Score=50.25 Aligned_cols=24 Identities=4% Similarity=-0.086 Sum_probs=15.0
Q ss_pred HHHHHHHhcCCCccchhhhchhcc
Q 011334 182 FITHRAFCDALAEESTRLASSVVA 205 (488)
Q Consensus 182 L~~H~r~H~~~~~~~C~~C~~sf~ 205 (488)
|.+|+++|.++++|.|++|++.|.
T Consensus 2 l~~H~~~H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 2 LRRHMRTHTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHSSSSSEEESSSSEEES
T ss_pred HHHHhhhcCCCCCCCCCCCcCeeC
Confidence 556666666666666666666654
No 25
>PHA00732 hypothetical protein
Probab=97.41 E-value=9.3e-05 Score=60.89 Aligned_cols=47 Identities=19% Similarity=0.295 Sum_probs=40.2
Q ss_pred cccccccCccccchhhhhhhhcc-cCCcceecC-CCCccCChHHHHHHHHHhcC
Q 011334 140 KWKCEKCSKKYAVQSDWKAHSKT-CGTREYKCD-CGTLFSRKDSFITHRAFCDA 191 (488)
Q Consensus 140 py~C~~Cgk~F~~ks~L~~H~rt-~geKpy~C~-CgKsFs~ks~L~~H~r~H~~ 191 (488)
||+|..|++.|.....|+.|++. |. ++.|+ |++.|. .|..|.+....
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~--~~~C~~CgKsF~---~l~~H~~~~~~ 49 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT--LTKCPVCNKSYR---RLNQHFYSQYD 49 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC--CCccCCCCCEeC---ChhhhhcccCC
Confidence 68999999999999999999985 54 46899 999998 58899876543
No 26
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.26 E-value=0.00015 Score=73.01 Aligned_cols=72 Identities=26% Similarity=0.560 Sum_probs=46.6
Q ss_pred CCCceecCc--cccccCChHHHHHHHHh-cCCCcccccccccccccCceeecCCCcccCCCCCCccCChhhhhhhhcccc
Q 011334 60 ATNRFICEI--CNKGFQRDQNLQLHRRG-HNLPWKLRQRTNKDVIKKKVYICPEKTCVHHEPSRALGDLTGIKKHFSRKH 136 (488)
Q Consensus 60 ~~kpy~C~~--CgK~F~~~~~L~~H~r~-H~~p~~~~~~~~~~~~~~kpy~C~~C~C~~~~c~k~F~~~s~L~~H~r~Ht 136 (488)
++|||+|++ |.|.|+....|+-|+.- |. ..+...-+.. +.-..| -.
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~--------------~~~~~~~p~p-----~~~~~F------------~~ 394 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQ--------------NQKLHENPSP-----EKMNIF------------SA 394 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhcccc--------------CcccCCCCCc-----cccccc------------cc
Confidence 469999998 99999999999999764 42 1111111111 001122 23
Q ss_pred CCccccccccCccccchhhhhhhhcc
Q 011334 137 GEKKWKCEKCSKKYAVQSDWKAHSKT 162 (488)
Q Consensus 137 geKpy~C~~Cgk~F~~ks~L~~H~rt 162 (488)
..|||+|++|+|+|+..-.|+.|++.
T Consensus 395 ~~KPYrCevC~KRYKNlNGLKYHr~H 420 (423)
T COG5189 395 KDKPYRCEVCDKRYKNLNGLKYHRKH 420 (423)
T ss_pred cCCceeccccchhhccCccceecccc
Confidence 46788888888888887778777654
No 27
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=97.15 E-value=0.00039 Score=52.81 Aligned_cols=47 Identities=21% Similarity=0.451 Sum_probs=29.3
Q ss_pred ccccccCccccchhhhhhhhcc-cC--CcceecC-CCCccCChHHHHHHHHHhc
Q 011334 141 WKCEKCSKKYAVQSDWKAHSKT-CG--TREYKCD-CGTLFSRKDSFITHRAFCD 190 (488)
Q Consensus 141 y~C~~Cgk~F~~ks~L~~H~rt-~g--eKpy~C~-CgKsFs~ks~L~~H~r~H~ 190 (488)
|.|++|++ ......|..|... |. .+.+.|+ |...+. ..|..|+..+|
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 66777777 4445667777665 42 2457777 776544 36777776655
No 28
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.14 E-value=0.00029 Score=43.74 Aligned_cols=22 Identities=41% Similarity=0.763 Sum_probs=16.3
Q ss_pred eecC-CCCccCChHHHHHHHHHh
Q 011334 168 YKCD-CGTLFSRKDSFITHRAFC 189 (488)
Q Consensus 168 y~C~-CgKsFs~ks~L~~H~r~H 189 (488)
|.|+ |++.|.++..|.+|++.|
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 777777777777777764
No 29
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.12 E-value=0.00027 Score=43.88 Aligned_cols=23 Identities=43% Similarity=0.902 Sum_probs=21.7
Q ss_pred eecCccccccCChHHHHHHHHhc
Q 011334 64 FICEICNKGFQRDQNLQLHRRGH 86 (488)
Q Consensus 64 y~C~~CgK~F~~~~~L~~H~r~H 86 (488)
|+|++|++.|.+...|..|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 78999999999999999999875
No 30
>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=96.79 E-value=0.0011 Score=40.81 Aligned_cols=23 Identities=26% Similarity=0.641 Sum_probs=16.0
Q ss_pred eecC-CCCccCChHHHHHHHHHhc
Q 011334 168 YKCD-CGTLFSRKDSFITHRAFCD 190 (488)
Q Consensus 168 y~C~-CgKsFs~ks~L~~H~r~H~ 190 (488)
|.|+ |++.|.++..|..|++.||
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 6777 8888888888888877764
No 31
>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=96.66 E-value=0.0017 Score=49.36 Aligned_cols=52 Identities=25% Similarity=0.519 Sum_probs=30.3
Q ss_pred ceecCccccccCChHHHHHHHHhcCCCcccccccccccccCceeecCCCcccCCCCCCccCChhhhhhhhcccc
Q 011334 63 RFICEICNKGFQRDQNLQLHRRGHNLPWKLRQRTNKDVIKKKVYICPEKTCVHHEPSRALGDLTGIKKHFSRKH 136 (488)
Q Consensus 63 py~C~~CgK~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~~kpy~C~~C~C~~~~c~k~F~~~s~L~~H~r~Ht 136 (488)
.|.|+.|++. .....|..|....+. ...+.+.|++| ...+. ..|.+|+..++
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 23345777777 44332 36666666544
No 32
>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=96.64 E-value=0.0014 Score=40.35 Aligned_cols=24 Identities=42% Similarity=0.895 Sum_probs=20.4
Q ss_pred eecCccccccCChHHHHHHHHhcC
Q 011334 64 FICEICNKGFQRDQNLQLHRRGHN 87 (488)
Q Consensus 64 y~C~~CgK~F~~~~~L~~H~r~H~ 87 (488)
|.|++|++.|.+...|..|++.|+
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 789999999999999999999874
No 33
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=96.61 E-value=0.00099 Score=42.98 Aligned_cols=24 Identities=29% Similarity=0.663 Sum_probs=17.0
Q ss_pred ceecC-CCCccCChHHHHHHHHHhc
Q 011334 167 EYKCD-CGTLFSRKDSFITHRAFCD 190 (488)
Q Consensus 167 py~C~-CgKsFs~ks~L~~H~r~H~ 190 (488)
+|.|+ |++.|.....|..|++.|+
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 46777 7777777777777776664
No 34
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.61 E-value=0.0014 Score=54.65 Aligned_cols=67 Identities=13% Similarity=0.255 Sum_probs=21.2
Q ss_pred CCccCChhhhhhhhccccCCccccccccCccccchhhhhhhhcccCCcceecC-CCCccCChHHHHHHHHHh
Q 011334 119 SRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAHSKTCGTREYKCD-CGTLFSRKDSFITHRAFC 189 (488)
Q Consensus 119 ~k~F~~~s~L~~H~r~HtgeKpy~C~~Cgk~F~~ks~L~~H~rt~geKpy~C~-CgKsFs~ks~L~~H~r~H 189 (488)
+..|.....|..|+...++-..- ....+.....+..+.+..-...+.|. |++.|.....|..|++.+
T Consensus 6 ~~~f~~~~~l~~H~~~~H~~~~~----~~~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 6 DESFSSVDDLLQHMKKKHGFDIP----DQKYLVDPNRLLNYLRKKVKESFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp -----------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHT
T ss_pred ccccccccccccccccccccccc----cccccccccccccccccccCCCCCCCccCCCCcCHHHHHHHHcCc
Confidence 89999999999999876653211 11222244444445444333479999 999999999999999975
No 35
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.57 E-value=0.002 Score=71.48 Aligned_cols=54 Identities=19% Similarity=0.255 Sum_probs=31.0
Q ss_pred cccccCccccchhhhhhhhcccCCcceecC----CCCccCChHHHHHHHHHhcCCCcc
Q 011334 142 KCEKCSKKYAVQSDWKAHSKTCGTREYKCD----CGTLFSRKDSFITHRAFCDALAEE 195 (488)
Q Consensus 142 ~C~~Cgk~F~~ks~L~~H~rt~geKpy~C~----CgKsFs~ks~L~~H~r~H~~~~~~ 195 (488)
.|..|...|.....|.+|++.+.+--.-|+ |+.-|.....|..|-|.+|-..++
T Consensus 184 ~C~~C~~~fld~~el~rH~~~~h~~chfC~~~~~~neyy~~~~dLe~HfR~~HflCE~ 241 (669)
T KOG2231|consen 184 LCKFCHERFLDDDELYRHLRFDHEFCHFCDYKTGQNEYYNDYDDLEEHFRKGHFLCEE 241 (669)
T ss_pred cchhhhhhhccHHHHHHhhccceeheeecCcccccchhcccchHHHHHhhhcCccccc
Confidence 466666666666666666665332223331 445566666666666666555554
No 36
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=96.54 E-value=0.0012 Score=68.23 Aligned_cols=138 Identities=17% Similarity=0.173 Sum_probs=103.3
Q ss_pred CceecCccccccCChHHHHHHHH--hcCCCcccccccccccccC--ceeecC--CCcccCCCCCCccCChhhhhhhhccc
Q 011334 62 NRFICEICNKGFQRDQNLQLHRR--GHNLPWKLRQRTNKDVIKK--KVYICP--EKTCVHHEPSRALGDLTGIKKHFSRK 135 (488)
Q Consensus 62 kpy~C~~CgK~F~~~~~L~~H~r--~H~~p~~~~~~~~~~~~~~--kpy~C~--~C~C~~~~c~k~F~~~s~L~~H~r~H 135 (488)
.++.|..|.+.|.....|.+|.+ .|. .+ +++.|+ .| ++.|.....+.+|...|
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~--------------~~~~~~~~~p~~~~-------~~~~~~~~~~~~~~~~~ 346 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHS--------------GESLKPFSCPYSLC-------GKLFSRNDALKRHILLH 346 (467)
T ss_pred cCCCCccccCCccccccccccccccccc--------------cccCCceeeeccCC-------CccccccccccCCcccc
Confidence 47899999999999999999999 676 66 899998 56 99999999999999999
Q ss_pred cCCccccccc--cCccccchhhhhhh----hc-c-cCCcceecC---CCCccCChHHHHHHHHHhcCCC--ccchhhhch
Q 011334 136 HGEKKWKCEK--CSKKYAVQSDWKAH----SK-T-CGTREYKCD---CGTLFSRKDSFITHRAFCDALA--EESTRLASS 202 (488)
Q Consensus 136 tgeKpy~C~~--Cgk~F~~ks~L~~H----~r-t-~geKpy~C~---CgKsFs~ks~L~~H~r~H~~~~--~~~C~~C~~ 202 (488)
++.++++|.. |.+.+.....-..+ .. . +..+.+.|. |-+.+.+...+..|...|-... .+.+..|.+
T Consensus 347 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 426 (467)
T COG5048 347 TSISPAKEKLLNSSSKFSPLLNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSK 426 (467)
T ss_pred cCCCccccccccCccccccccCCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchh
Confidence 9988888744 66665555442111 11 1 455677775 8888888888888888876665 457778888
Q ss_pred hccccCCCcccccCCCCC
Q 011334 203 VVAAASNLNFRTDHTVNL 220 (488)
Q Consensus 203 sf~~~s~L~~~~~~~~~~ 220 (488)
.+.....+..+...+...
T Consensus 427 ~~~~~~~~~~~~~~~~~~ 444 (467)
T COG5048 427 SFNRHYNLIPHKKIHTNH 444 (467)
T ss_pred hccCcccccccccccccC
Confidence 887777776555554433
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=96.39 E-value=0.0021 Score=41.43 Aligned_cols=25 Identities=36% Similarity=0.700 Sum_probs=23.6
Q ss_pred ceecCccccccCChHHHHHHHHhcC
Q 011334 63 RFICEICNKGFQRDQNLQLHRRGHN 87 (488)
Q Consensus 63 py~C~~CgK~F~~~~~L~~H~r~H~ 87 (488)
+|+|.+|++.|.....|..|++.|.
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhc
Confidence 6899999999999999999999885
No 38
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.36 E-value=0.0017 Score=54.24 Aligned_cols=72 Identities=18% Similarity=0.450 Sum_probs=20.2
Q ss_pred ecCccccccCChHHHHHHHHhcCCCcccccccccccccCceeecCCCcccCCCCCCccCChhhhhhhhccccCCcccccc
Q 011334 65 ICEICNKGFQRDQNLQLHRRGHNLPWKLRQRTNKDVIKKKVYICPEKTCVHHEPSRALGDLTGIKKHFSRKHGEKKWKCE 144 (488)
Q Consensus 65 ~C~~CgK~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~~kpy~C~~C~C~~~~c~k~F~~~s~L~~H~r~HtgeKpy~C~ 144 (488)
+|..|+..|.....|..|+...+. -. .+. ...+.....+..+.+... ...|.|.
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~--------------~~---~~~--------~~~l~~~~~~~~~~~~~~-~~~~~C~ 54 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHG--------------FD---IPD--------QKYLVDPNRLLNYLRKKV-KESFRCP 54 (100)
T ss_dssp --------------------------------------------------------------------------SSEEBS
T ss_pred Cccccccccccccccccccccccc--------------cc---ccc--------cccccccccccccccccc-CCCCCCC
Confidence 599999999999999999966541 00 000 111222333333333222 2268999
Q ss_pred ccCccccchhhhhhhhcc
Q 011334 145 KCSKKYAVQSDWKAHSKT 162 (488)
Q Consensus 145 ~Cgk~F~~ks~L~~H~rt 162 (488)
.|++.|.....|..|++.
T Consensus 55 ~C~~~f~s~~~l~~Hm~~ 72 (100)
T PF12756_consen 55 YCNKTFRSREALQEHMRS 72 (100)
T ss_dssp SSS-EESSHHHHHHHHHH
T ss_pred ccCCCCcCHHHHHHHHcC
Confidence 999999999999999987
No 39
>smart00355 ZnF_C2H2 zinc finger.
Probab=95.40 E-value=0.013 Score=36.27 Aligned_cols=22 Identities=32% Similarity=0.803 Sum_probs=15.8
Q ss_pred eecC-CCCccCChHHHHHHHHHh
Q 011334 168 YKCD-CGTLFSRKDSFITHRAFC 189 (488)
Q Consensus 168 y~C~-CgKsFs~ks~L~~H~r~H 189 (488)
|.|. |++.|.....|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 4677 777777777777777755
No 40
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=95.40 E-value=0.0085 Score=44.87 Aligned_cols=31 Identities=13% Similarity=0.230 Sum_probs=13.9
Q ss_pred CCccccccccCccccchhhhhhhhcc-cCCcc
Q 011334 137 GEKKWKCEKCSKKYAVQSDWKAHSKT-CGTRE 167 (488)
Q Consensus 137 geKpy~C~~Cgk~F~~ks~L~~H~rt-~geKp 167 (488)
.+.|-.|++|+..+.+..+|++|+.. |+.||
T Consensus 21 S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 21 SEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred cCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 34555566666655555556555554 55443
No 41
>smart00355 ZnF_C2H2 zinc finger.
Probab=95.36 E-value=0.011 Score=36.56 Aligned_cols=24 Identities=33% Similarity=0.664 Sum_probs=22.2
Q ss_pred eecCccccccCChHHHHHHHHhcC
Q 011334 64 FICEICNKGFQRDQNLQLHRRGHN 87 (488)
Q Consensus 64 y~C~~CgK~F~~~~~L~~H~r~H~ 87 (488)
|.|..|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 689999999999999999999874
No 42
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=95.32 E-value=0.0083 Score=61.89 Aligned_cols=148 Identities=18% Similarity=0.219 Sum_probs=85.9
Q ss_pred CCCCCCCCCCCCchhHhhcCcc--ccCCC--CceecC--ccccccCChHHHHHHHHhcCCCcccccccccccccCceeec
Q 011334 35 KKKRNLPGTPDPDAEVIALSPK--TLMAT--NRFICE--ICNKGFQRDQNLQLHRRGHNLPWKLRQRTNKDVIKKKVYIC 108 (488)
Q Consensus 35 k~k~~~p~~~~~~~~~l~~~~k--~~~~~--kpy~C~--~CgK~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~~kpy~C 108 (488)
...+..+.........+..+.. .|..+ +++.|+ .|++.|.+...+..|...|. ..+++.|
T Consensus 289 ~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~--------------~~~~~~~ 354 (467)
T COG5048 289 PIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHT--------------SISPAKE 354 (467)
T ss_pred CCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCccccc--------------CCCcccc
Confidence 3555666666666677777777 78888 999999 79999999999999999997 3333333
Q ss_pred CCCcccCCCCCCccCChhh-----hhhhhccccCCcccccc--ccCccccchhhhhhhhccc-CCc--ceecC-CCCccC
Q 011334 109 PEKTCVHHEPSRALGDLTG-----IKKHFSRKHGEKKWKCE--KCSKKYAVQSDWKAHSKTC-GTR--EYKCD-CGTLFS 177 (488)
Q Consensus 109 ~~C~C~~~~c~k~F~~~s~-----L~~H~r~HtgeKpy~C~--~Cgk~F~~ks~L~~H~rt~-geK--py~C~-CgKsFs 177 (488)
....| .+.+..... ...+.......+.+.|. .|-..+.....+..|...+ ..+ .+.|. |.+.|.
T Consensus 355 ~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 429 (467)
T COG5048 355 KLLNS-----SSKFSPLLNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFN 429 (467)
T ss_pred ccccC-----ccccccccCCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhcc
Confidence 33222 222221111 11111111223344443 2555566666666555542 222 23334 777777
Q ss_pred ChHHHHHHHHHhcCCCccchhhhc
Q 011334 178 RKDSFITHRAFCDALAEESTRLAS 201 (488)
Q Consensus 178 ~ks~L~~H~r~H~~~~~~~C~~C~ 201 (488)
....+..|++.|....+..|..+.
T Consensus 430 ~~~~~~~~~~~~~~~~~~~~~~~~ 453 (467)
T COG5048 430 RHYNLIPHKKIHTNHAPLLCSILK 453 (467)
T ss_pred CcccccccccccccCCceeecccc
Confidence 777777777666665555554443
No 43
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=95.31 E-value=0.009 Score=70.10 Aligned_cols=122 Identities=17% Similarity=0.230 Sum_probs=72.4
Q ss_pred CCceecCccccccCChHHHHHHHHh-cCCCccccc----------ccccccccCceeecCCCcccCCCCCCccCChhhhh
Q 011334 61 TNRFICEICNKGFQRDQNLQLHRRG-HNLPWKLRQ----------RTNKDVIKKKVYICPEKTCVHHEPSRALGDLTGIK 129 (488)
Q Consensus 61 ~kpy~C~~CgK~F~~~~~L~~H~r~-H~~p~~~~~----------~~~~~~~~~kpy~C~~C~C~~~~c~k~F~~~s~L~ 129 (488)
.|.|+|+.|+..|+....|..|||. |.......+ +-.....+.++|.|..| ...+.....|.
T Consensus 463 ~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C-------~~stttng~Ls 535 (1406)
T KOG1146|consen 463 FKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRAC-------NYSTTTNGNLS 535 (1406)
T ss_pred cccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceee-------eeeeecchHHH
Confidence 4789999999999999999999998 432111100 00011134566677766 77777777777
Q ss_pred hhhcc--cc-----------------------------------C------CccccccccCccccchhhhhhhhcc-cCC
Q 011334 130 KHFSR--KH-----------------------------------G------EKKWKCEKCSKKYAVQSDWKAHSKT-CGT 165 (488)
Q Consensus 130 ~H~r~--Ht-----------------------------------g------eKpy~C~~Cgk~F~~ks~L~~H~rt-~ge 165 (488)
+|+.. |. + +-+|.|.+|++.-....+|+.|+.. +.-
T Consensus 536 ihlqS~~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~ags~~pktkP~~~C~vc~yetniarnlrihmtss~~s 615 (1406)
T KOG1146|consen 536 IHLQSDLHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSAGSSGPKTKPSWRCEVCSYETNIARNLRIHMTASPSS 615 (1406)
T ss_pred HHHHHHhhHHHHHHHHhccccchhhhhhhhcccCcccccCCCCCCCCCCCCCCCcchhhhcchhhhhhccccccccCCCC
Confidence 77642 11 0 1135666666666666666666655 222
Q ss_pred c-ceecC-CCCccCChHHHHHHHHHh
Q 011334 166 R-EYKCD-CGTLFSRKDSFITHRAFC 189 (488)
Q Consensus 166 K-py~C~-CgKsFs~ks~L~~H~r~H 189 (488)
. |.-|. |.-.+.....+..|.+.+
T Consensus 616 ~~p~~~Lq~~it~~l~~~~~~~~~lp 641 (1406)
T KOG1146|consen 616 SPPSLVLQQNITSSLASLLGGQGRLP 641 (1406)
T ss_pred CChHHHhhhcchhhccccccCcCCCC
Confidence 2 35555 665555555555544443
No 44
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.19 E-value=0.022 Score=58.31 Aligned_cols=108 Identities=16% Similarity=0.283 Sum_probs=68.4
Q ss_pred eecCc--cccccCChHHHHHHHHhcCCCcccccccccccccCceeecCCCcccCCCCCCcc------CChhhhhhhhccc
Q 011334 64 FICEI--CNKGFQRDQNLQLHRRGHNLPWKLRQRTNKDVIKKKVYICPEKTCVHHEPSRAL------GDLTGIKKHFSRK 135 (488)
Q Consensus 64 y~C~~--CgK~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~~kpy~C~~C~C~~~~c~k~F------~~~s~L~~H~r~H 135 (488)
|.|+. |......-..|+.|.+..+ ..+.|.+|-- + .+.| .+...|+.|...-
T Consensus 152 F~CP~skc~~~C~~~k~lk~H~K~~H----------------~~~~C~~C~~--n--Kk~F~~E~~lF~~~~Lr~H~~~G 211 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKAQH----------------GFVLCSECIG--N--KKDFWNEIRLFRSSTLRDHKNGG 211 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhhc----------------CcEEhHhhhc--C--cccCccceeeeecccccccccCC
Confidence 77875 6655555677888887654 1245665510 0 2223 3445566665543
Q ss_pred cCCcc----ccccccCccccchhhhhhhhcccCCcceecC-CC----CccCChHHHHHHHHHhcC
Q 011334 136 HGEKK----WKCEKCSKKYAVQSDWKAHSKTCGTREYKCD-CG----TLFSRKDSFITHRAFCDA 191 (488)
Q Consensus 136 tgeKp----y~C~~Cgk~F~~ks~L~~H~rt~geKpy~C~-Cg----KsFs~ks~L~~H~r~H~~ 191 (488)
..+.- -.|..|.+.|..-..|.+|+|...|+-|.|+ -+ .-|.....|..|.+.-|-
T Consensus 212 ~~e~GFKGHP~C~FC~~~FYdDDEL~~HcR~~HE~ChICD~v~p~~~QYFK~Y~~Le~HF~~~hy 276 (493)
T COG5236 212 LEEEGFKGHPLCIFCKIYFYDDDELRRHCRLRHEACHICDMVGPIRYQYFKSYEDLEAHFRNAHY 276 (493)
T ss_pred ccccCcCCCchhhhccceecChHHHHHHHHhhhhhhhhhhccCccchhhhhCHHHHHHHhhcCce
Confidence 32212 3588899999999999999888666777776 33 347778888888775443
No 45
>PRK04860 hypothetical protein; Provisional
Probab=95.11 E-value=0.0092 Score=55.63 Aligned_cols=34 Identities=26% Similarity=0.791 Sum_probs=17.4
Q ss_pred cccccccCccccchhhhhhhhcc-cCCcceecC-CCCccC
Q 011334 140 KWKCEKCSKKYAVQSDWKAHSKT-CGTREYKCD-CGTLFS 177 (488)
Q Consensus 140 py~C~~Cgk~F~~ks~L~~H~rt-~geKpy~C~-CgKsFs 177 (488)
+|.|. |++ ....+++|.++ .++++|.|. |++.|.
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~ 154 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLV 154 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeE
Confidence 45554 554 44445555555 445555555 555554
No 46
>PRK04860 hypothetical protein; Provisional
Probab=94.69 E-value=0.012 Score=54.86 Aligned_cols=36 Identities=17% Similarity=0.328 Sum_probs=19.1
Q ss_pred ceecCCCCccCChHHHHHHHHHhcCCCccchhhhchhcc
Q 011334 167 EYKCDCGTLFSRKDSFITHRAFCDALAEESTRLASSVVA 205 (488)
Q Consensus 167 py~C~CgKsFs~ks~L~~H~r~H~~~~~~~C~~C~~sf~ 205 (488)
+|.|.|++ ....+++|.++|.++++|.|..|+..|.
T Consensus 119 ~Y~C~C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~ 154 (160)
T PRK04860 119 PYRCKCQE---HQLTVRRHNRVVRGEAVYRCRRCGETLV 154 (160)
T ss_pred EEEcCCCC---eeCHHHHHHHHhcCCccEECCCCCceeE
Confidence 45555554 4444555555555555555555555443
No 47
>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=94.41 E-value=0.039 Score=41.41 Aligned_cols=32 Identities=13% Similarity=0.295 Sum_probs=23.5
Q ss_pred cCCcceecC-CCCccCChHHHHHHHHHhcCCCc
Q 011334 163 CGTREYKCD-CGTLFSRKDSFITHRAFCDALAE 194 (488)
Q Consensus 163 ~geKpy~C~-CgKsFs~ks~L~~H~r~H~~~~~ 194 (488)
-.+.|-.|. |+..+....+|++|+..+|+.++
T Consensus 20 ~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 20 QSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred ccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 356899999 99999999999999999998775
No 48
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=94.38 E-value=0.053 Score=63.96 Aligned_cols=28 Identities=21% Similarity=0.234 Sum_probs=23.5
Q ss_pred cCceeecCCCcccCCCCCCccCChhhhhhhhcccc
Q 011334 102 KKKVYICPEKTCVHHEPSRALGDLTGIKKHFSRKH 136 (488)
Q Consensus 102 ~~kpy~C~~C~C~~~~c~k~F~~~s~L~~H~r~Ht 136 (488)
..+.|+|+.| ++.|+....|..|+|..|
T Consensus 462 ~~kt~~cpkc-------~~~yk~a~~L~vhmRskh 489 (1406)
T KOG1146|consen 462 FFKTLKCPKC-------NWHYKLAQTLGVHMRSKH 489 (1406)
T ss_pred ccccccCCcc-------chhhhhHHHhhhcccccc
Confidence 3478899998 899999999999999743
No 49
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=94.02 E-value=0.031 Score=35.15 Aligned_cols=23 Identities=43% Similarity=0.986 Sum_probs=21.5
Q ss_pred eecCccccccCChHHHHHHHHhc
Q 011334 64 FICEICNKGFQRDQNLQLHRRGH 86 (488)
Q Consensus 64 y~C~~CgK~F~~~~~L~~H~r~H 86 (488)
|.|.+|++.|.....|+.|++.+
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 78999999999999999999875
No 50
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=92.94 E-value=0.058 Score=33.89 Aligned_cols=21 Identities=33% Similarity=0.694 Sum_probs=13.7
Q ss_pred eecC-CCCccCChHHHHHHHHH
Q 011334 168 YKCD-CGTLFSRKDSFITHRAF 188 (488)
Q Consensus 168 y~C~-CgKsFs~ks~L~~H~r~ 188 (488)
|.|+ |++.|.....|..|++.
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRS 22 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTT
T ss_pred CCCCCCCCCcCCHHHHHHHHCc
Confidence 4566 66666666666666654
No 51
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=92.90 E-value=0.094 Score=32.75 Aligned_cols=22 Identities=32% Similarity=0.505 Sum_probs=14.7
Q ss_pred eecC-CCCccCChHHHHHHHHHhc
Q 011334 168 YKCD-CGTLFSRKDSFITHRAFCD 190 (488)
Q Consensus 168 y~C~-CgKsFs~ks~L~~H~r~H~ 190 (488)
|+|. |..... +..|.+|++.||
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 777777777765
No 52
>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=92.11 E-value=0.091 Score=33.92 Aligned_cols=22 Identities=27% Similarity=0.738 Sum_probs=17.2
Q ss_pred ccccccCccccchhhhhhhhcc
Q 011334 141 WKCEKCSKKYAVQSDWKAHSKT 162 (488)
Q Consensus 141 y~C~~Cgk~F~~ks~L~~H~rt 162 (488)
|.|..|++.|.....|..|++.
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 6788888888888888888765
No 53
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=91.24 E-value=0.1 Score=53.56 Aligned_cols=88 Identities=25% Similarity=0.513 Sum_probs=61.9
Q ss_pred eecCCCcccCCCCCCccCChhhhhhhhccccCCccccccccC---------ccccchhhhhhhhcc-cCC---c-ceecC
Q 011334 106 YICPEKTCVHHEPSRALGDLTGIKKHFSRKHGEKKWKCEKCS---------KKYAVQSDWKAHSKT-CGT---R-EYKCD 171 (488)
Q Consensus 106 y~C~~C~C~~~~c~k~F~~~s~L~~H~r~HtgeKpy~C~~Cg---------k~F~~ks~L~~H~rt-~ge---K-py~C~ 171 (488)
|.|+.-.| .+.......|+.|.+..|+. +-|.+|- ....++..|+.|... -.+ | .-.|.
T Consensus 152 F~CP~skc-----~~~C~~~k~lk~H~K~~H~~--~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFKGHP~C~ 224 (493)
T COG5236 152 FKCPKSKC-----HRRCGSLKELKKHYKAQHGF--VLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCI 224 (493)
T ss_pred hcCCchhh-----hhhhhhHHHHHHHHHhhcCc--EEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchhh
Confidence 56876544 66667788999999976653 5676663 233456778888765 211 1 23699
Q ss_pred -CCCccCChHHHHHHHHHhcCCCccchhhhchhc
Q 011334 172 -CGTLFSRKDSFITHRAFCDALAEESTRLASSVV 204 (488)
Q Consensus 172 -CgKsFs~ks~L~~H~r~H~~~~~~~C~~C~~sf 204 (488)
|.+.|..-+.|.+|+|.-| .+|.+|++.-
T Consensus 225 FC~~~FYdDDEL~~HcR~~H----E~ChICD~v~ 254 (493)
T COG5236 225 FCKIYFYDDDELRRHCRLRH----EACHICDMVG 254 (493)
T ss_pred hccceecChHHHHHHHHhhh----hhhhhhhccC
Confidence 9999999999999998643 4688887664
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=90.75 E-value=0.065 Score=34.60 Aligned_cols=23 Identities=30% Similarity=0.806 Sum_probs=20.8
Q ss_pred eecCccccccCChHHHHHHHHhc
Q 011334 64 FICEICNKGFQRDQNLQLHRRGH 86 (488)
Q Consensus 64 y~C~~CgK~F~~~~~L~~H~r~H 86 (488)
|.|..|++.|.+...|..|++..
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 78999999999999999998753
No 55
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.71 E-value=0.64 Score=52.18 Aligned_cols=120 Identities=18% Similarity=0.262 Sum_probs=72.0
Q ss_pred eecCccccccCChHHHHHHHHhcCCCcccccccccc--------------c--------ccCc----eeecCCCcccCCC
Q 011334 64 FICEICNKGFQRDQNLQLHRRGHNLPWKLRQRTNKD--------------V--------IKKK----VYICPEKTCVHHE 117 (488)
Q Consensus 64 y~C~~CgK~F~~~~~L~~H~r~H~~p~~~~~~~~~~--------------~--------~~~k----py~C~~C~C~~~~ 117 (488)
..|..| ..|.....|+.|++.-|.-..|..+.... . ..++ --.|..|
T Consensus 116 ~~~~~c-~~~~s~~~Lk~H~~~~H~~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~~s~rGhp~C~~C------ 188 (669)
T KOG2231|consen 116 KECLHC-TEFKSVENLKNHMRDQHKLHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDDESCRGHPLCKFC------ 188 (669)
T ss_pred CCCccc-cchhHHHHHHHHHHHhhhhhccccccccceeeeeeeehehHHHHHHHHhcCCCccccccCCccchhh------
Confidence 478899 88899999999985433222222111100 0 0000 0234444
Q ss_pred CCCccCChhhhhhhhccccCCccccccccC------ccccchhhhhhhhcccCCcceecC---CC-Ccc----CChHHHH
Q 011334 118 PSRALGDLTGIKKHFSRKHGEKKWKCEKCS------KKYAVQSDWKAHSKTCGTREYKCD---CG-TLF----SRKDSFI 183 (488)
Q Consensus 118 c~k~F~~~s~L~~H~r~HtgeKpy~C~~Cg------k~F~~ks~L~~H~rt~geKpy~C~---Cg-KsF----s~ks~L~ 183 (488)
...|.....|.+|++.++ |.|..|. .-|....+|..|.|.. .|.|+ |. +.| .....|+
T Consensus 189 -~~~fld~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~---HflCE~~~C~~~~f~~~~~~ei~lk 260 (669)
T KOG2231|consen 189 -HERFLDDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKG---HFLCEEEFCRTKKFYVAFELEIELK 260 (669)
T ss_pred -hhhhccHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhhhc---CccccccccccceeeehhHHHHHHH
Confidence 899999999999999877 6777774 5577788899998871 25664 43 223 3344555
Q ss_pred HHHHHhcCCCccchh
Q 011334 184 THRAFCDALAEESTR 198 (488)
Q Consensus 184 ~H~r~H~~~~~~~C~ 198 (488)
.|.+.+.-++-|.|.
T Consensus 261 ~~~~~~~~e~~~~~~ 275 (669)
T KOG2231|consen 261 AHNRFIQHEKCYICR 275 (669)
T ss_pred hhccccchheeccCC
Confidence 555444445555553
No 56
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=89.67 E-value=0.21 Score=31.13 Aligned_cols=23 Identities=26% Similarity=0.595 Sum_probs=18.7
Q ss_pred eecCccccccCChHHHHHHHHhcC
Q 011334 64 FICEICNKGFQRDQNLQLHRRGHN 87 (488)
Q Consensus 64 y~C~~CgK~F~~~~~L~~H~r~H~ 87 (488)
|+|+.|..... ...|.+|++.|+
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 78999999888 899999998864
No 57
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=88.62 E-value=0.37 Score=30.84 Aligned_cols=20 Identities=35% Similarity=0.918 Sum_probs=13.2
Q ss_pred ecC-CCCccCChHHHHHHHHHh
Q 011334 169 KCD-CGTLFSRKDSFITHRAFC 189 (488)
Q Consensus 169 ~C~-CgKsFs~ks~L~~H~r~H 189 (488)
.|. ||+.| ..+.|.+|++++
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 566 77777 566677776654
No 58
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=88.14 E-value=0.15 Score=49.98 Aligned_cols=37 Identities=30% Similarity=0.493 Sum_probs=26.1
Q ss_pred CCccCChhhhhhhhccccCCccccccccCccccchhhhhhh
Q 011334 119 SRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAH 159 (488)
Q Consensus 119 ~k~F~~~s~L~~H~r~HtgeKpy~C~~Cgk~F~~ks~L~~H 159 (488)
++.|-+..-|.+|++..| |+|.+|.|...+--.|..|
T Consensus 17 nrefddekiliqhqkakh----fkchichkkl~sgpglsih 53 (341)
T KOG2893|consen 17 NREFDDEKILIQHQKAKH----FKCHICHKKLFSGPGLSIH 53 (341)
T ss_pred ccccchhhhhhhhhhhcc----ceeeeehhhhccCCCceee
Confidence 777777777777766533 7787777776666666666
No 59
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=86.85 E-value=0.67 Score=47.73 Aligned_cols=25 Identities=32% Similarity=0.606 Sum_probs=22.4
Q ss_pred CceecCccccccCChHHHHHHHHhc
Q 011334 62 NRFICEICNKGFQRDQNLQLHRRGH 86 (488)
Q Consensus 62 kpy~C~~CgK~F~~~~~L~~H~r~H 86 (488)
.+++|-.|.|.|..+..|+.|||.-
T Consensus 194 ~r~~CLyCekifrdkntLkeHMrkK 218 (423)
T KOG2482|consen 194 ERLRCLYCEKIFRDKNTLKEHMRKK 218 (423)
T ss_pred hhheeeeeccccCCcHHHHHHHHhc
Confidence 3689999999999999999999763
No 60
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=86.00 E-value=0.59 Score=31.55 Aligned_cols=24 Identities=29% Similarity=0.801 Sum_probs=21.4
Q ss_pred ceecCccccccCChHHHHHHHHhc
Q 011334 63 RFICEICNKGFQRDQNLQLHRRGH 86 (488)
Q Consensus 63 py~C~~CgK~F~~~~~L~~H~r~H 86 (488)
+|.|++|++.|.....+..|++..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~gk 26 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKGK 26 (35)
T ss_pred CeEccccCCccCCHHHHHHHHChH
Confidence 589999999999999999998653
No 61
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=84.76 E-value=0.73 Score=31.10 Aligned_cols=22 Identities=23% Similarity=0.437 Sum_probs=17.5
Q ss_pred ceecC-CCCccCChHHHHHHHHH
Q 011334 167 EYKCD-CGTLFSRKDSFITHRAF 188 (488)
Q Consensus 167 py~C~-CgKsFs~ks~L~~H~r~ 188 (488)
+|.|+ |++.|.....+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 57788 88888888888888754
No 62
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=83.19 E-value=0.36 Score=47.36 Aligned_cols=44 Identities=23% Similarity=0.625 Sum_probs=35.8
Q ss_pred CccccccccCccccchhhhhhhhcccCCcceecC-CCCccCChHHHHHH
Q 011334 138 EKKWKCEKCSKKYAVQSDWKAHSKTCGTREYKCD-CGTLFSRKDSFITH 185 (488)
Q Consensus 138 eKpy~C~~Cgk~F~~ks~L~~H~rt~geKpy~C~-CgKsFs~ks~L~~H 185 (488)
.||| |.+|.+.|....-|.+|++. |.|+|. |.|..-+--.|..|
T Consensus 9 ~kpw-cwycnrefddekiliqhqka---khfkchichkkl~sgpglsih 53 (341)
T KOG2893|consen 9 DKPW-CWYCNREFDDEKILIQHQKA---KHFKCHICHKKLFSGPGLSIH 53 (341)
T ss_pred CCce-eeecccccchhhhhhhhhhh---ccceeeeehhhhccCCCceee
Confidence 4665 99999999999999999866 669999 99877666666555
No 63
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=81.77 E-value=1.2 Score=28.50 Aligned_cols=21 Identities=29% Similarity=0.667 Sum_probs=17.6
Q ss_pred eecCccccccCChHHHHHHHHh
Q 011334 64 FICEICNKGFQRDQNLQLHRRG 85 (488)
Q Consensus 64 y~C~~CgK~F~~~~~L~~H~r~ 85 (488)
..|+.||+.| ....|.+|++.
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 56789999764
No 64
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=81.68 E-value=0.48 Score=45.55 Aligned_cols=82 Identities=20% Similarity=0.434 Sum_probs=65.1
Q ss_pred cCceeecCCCcccCCCCCCccCChhhhhhhhccccCCccccccccCccccchhhhhhhhcc-c----------CCcceec
Q 011334 102 KKKVYICPEKTCVHHEPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAHSKT-C----------GTREYKC 170 (488)
Q Consensus 102 ~~kpy~C~~C~C~~~~c~k~F~~~s~L~~H~r~HtgeKpy~C~~Cgk~F~~ks~L~~H~rt-~----------geKpy~C 170 (488)
+...+.|++-+| -+.|.....+..|..+-|+ -.|..|.+.|.+..-|..|+.. | |..-|.|
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-----CQVFDALDDYEHHYHTLHG---NSCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQC 147 (253)
T ss_pred ccccccccccch-----HHHHhhhhhHHHhhhhccc---chhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHH
Confidence 455688998877 7888888888888765554 3799999999999999999764 4 4445999
Q ss_pred C---CCCccCChHHHHHHHHHhcC
Q 011334 171 D---CGTLFSRKDSFITHRAFCDA 191 (488)
Q Consensus 171 ~---CgKsFs~ks~L~~H~r~H~~ 191 (488)
- |+..|.+...-+.|+-.-|.
T Consensus 148 lvEgCt~KFkT~r~RkdH~I~~Hk 171 (253)
T KOG4173|consen 148 LVEGCTEKFKTSRDRKDHMIRMHK 171 (253)
T ss_pred HHHhhhhhhhhhhhhhhHHHHhcc
Confidence 4 99999999999999865443
No 65
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=81.28 E-value=0.45 Score=45.75 Aligned_cols=79 Identities=23% Similarity=0.435 Sum_probs=62.5
Q ss_pred CCCceecCc--cccccCChHHHHHHHHhcCCCcccccccccccccCceeecCCCcccCCCCCCccCChhhhhhhhcccc-
Q 011334 60 ATNRFICEI--CNKGFQRDQNLQLHRRGHNLPWKLRQRTNKDVIKKKVYICPEKTCVHHEPSRALGDLTGIKKHFSRKH- 136 (488)
Q Consensus 60 ~~kpy~C~~--CgK~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~~kpy~C~~C~C~~~~c~k~F~~~s~L~~H~r~Ht- 136 (488)
..+.|.|.+ |-..|.....+..|..+-+ .-.|.+| .|.|.+..-|..|+.--|
T Consensus 76 ~~~~~~cqvagc~~~~d~lD~~E~hY~~~h-----------------~~sCs~C-------~r~~Pt~hLLd~HI~E~HD 131 (253)
T KOG4173|consen 76 RVPAFACQVAGCCQVFDALDDYEHHYHTLH-----------------GNSCSFC-------KRAFPTGHLLDAHILEWHD 131 (253)
T ss_pred ccccccccccchHHHHhhhhhHHHhhhhcc-----------------cchhHHH-------HHhCCchhhhhHHHHHHHH
Confidence 345688988 8888988888888875543 1368887 899999999999986433
Q ss_pred ---------CCccccc--cccCccccchhhhhhhhcc
Q 011334 137 ---------GEKKWKC--EKCSKKYAVQSDWKAHSKT 162 (488)
Q Consensus 137 ---------geKpy~C--~~Cgk~F~~ks~L~~H~rt 162 (488)
|.-.|+| +.|+..|.+..+.++|+-.
T Consensus 132 s~Fqa~veRG~dMy~ClvEgCt~KFkT~r~RkdH~I~ 168 (253)
T KOG4173|consen 132 SLFQALVERGQDMYQCLVEGCTEKFKTSRDRKDHMIR 168 (253)
T ss_pred HHHHHHHHcCccHHHHHHHhhhhhhhhhhhhhhHHHH
Confidence 5557999 5699999999999999876
No 66
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=77.05 E-value=0.97 Score=41.93 Aligned_cols=13 Identities=23% Similarity=0.739 Sum_probs=6.1
Q ss_pred ccccccCccccch
Q 011334 141 WKCEKCSKKYAVQ 153 (488)
Q Consensus 141 y~C~~Cgk~F~~k 153 (488)
++|+.||++|...
T Consensus 29 ~~c~~c~~~f~~~ 41 (154)
T PRK00464 29 RECLACGKRFTTF 41 (154)
T ss_pred eeccccCCcceEe
Confidence 4454555544443
No 67
>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=76.37 E-value=3.2 Score=35.81 Aligned_cols=24 Identities=25% Similarity=0.564 Sum_probs=22.4
Q ss_pred eec----C-CCCccCChHHHHHHHHHhcC
Q 011334 168 YKC----D-CGTLFSRKDSFITHRAFCDA 191 (488)
Q Consensus 168 y~C----~-CgKsFs~ks~L~~H~r~H~~ 191 (488)
|.| . |+..+.+...+++|.+.+|+
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 899 7 99999999999999999875
No 68
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=75.92 E-value=3.3 Score=42.83 Aligned_cols=47 Identities=9% Similarity=0.121 Sum_probs=32.6
Q ss_pred eecC-CCCccCChHHHHHHHHHhcC---------------------------CCccchhhhchhccccCCCcccc
Q 011334 168 YKCD-CGTLFSRKDSFITHRAFCDA---------------------------LAEESTRLASSVVAAASNLNFRT 214 (488)
Q Consensus 168 y~C~-CgKsFs~ks~L~~H~r~H~~---------------------------~~~~~C~~C~~sf~~~s~L~~~~ 214 (488)
-.|- |...+-....|..||+..|. .+.-.|-.|...|-....|..|+
T Consensus 280 v~CLfC~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm 354 (423)
T KOG2482|consen 280 VVCLFCTNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHM 354 (423)
T ss_pred eEEEeeccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhc
Confidence 3788 99999889999999986532 11225667776776666666554
No 69
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=75.58 E-value=3.5 Score=43.26 Aligned_cols=64 Identities=19% Similarity=0.410 Sum_probs=42.1
Q ss_pred ceecCccccccCChHHHHHHHHh--cC---------CCcc----ccc-------cccc-ccccCceeecCCCcccCCCCC
Q 011334 63 RFICEICNKGFQRDQNLQLHRRG--HN---------LPWK----LRQ-------RTNK-DVIKKKVYICPEKTCVHHEPS 119 (488)
Q Consensus 63 py~C~~CgK~F~~~~~L~~H~r~--H~---------~p~~----~~~-------~~~~-~~~~~kpy~C~~C~C~~~~c~ 119 (488)
-|.|.-|...|.....-+.|+++ |. .|.. +.. .... ....+-++.|..| .
T Consensus 3 ~ftC~tC~v~F~~ad~Qr~HyKSdWHRYNLKRkVA~lPPItaE~F~~k~~s~~~~~~~~~e~~~~~~~c~~c-------~ 75 (390)
T KOG2785|consen 3 GFTCNTCNVEFDDADEQRAHYKSDWHRYNLKRKVASLPPITAEEFNEKVLSDDSEKEENLEEAESVVYCEAC-------N 75 (390)
T ss_pred cceeeceeeeeccHHHHHHHhhhhHHHhhHHhHhhcCCCcCHHHHhHHHhhhhhhhhhhhhhcccceehHHh-------h
Confidence 38999999999999888899876 43 1110 000 0000 1234567899998 8
Q ss_pred CccCChhhhhhhhc
Q 011334 120 RALGDLTGIKKHFS 133 (488)
Q Consensus 120 k~F~~~s~L~~H~r 133 (488)
|.|........|+.
T Consensus 76 k~~~s~~a~~~hl~ 89 (390)
T KOG2785|consen 76 KSFASPKAHENHLK 89 (390)
T ss_pred ccccChhhHHHHHH
Confidence 88888777666654
No 70
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=73.75 E-value=1.6 Score=43.32 Aligned_cols=55 Identities=20% Similarity=0.475 Sum_probs=39.1
Q ss_pred cccccccCccccchhhhhhhhcccCCcceecC-CCCccCChHHHHHHHHHhcCCCccc
Q 011334 140 KWKCEKCSKKYAVQSDWKAHSKTCGTREYKCD-CGTLFSRKDSFITHRAFCDALAEES 196 (488)
Q Consensus 140 py~C~~Cgk~F~~ks~L~~H~rt~geKpy~C~-CgKsFs~ks~L~~H~r~H~~~~~~~ 196 (488)
.|.|..||....- ..+.+|+-.|...-|.|. |++.|-+ ..++.|...-+....|.
T Consensus 3 ~FtCnvCgEsvKK-p~vekH~srCrn~~fSCIDC~k~F~~-~sYknH~kCITEaQKYg 58 (276)
T KOG2186|consen 3 FFTCNVCGESVKK-PQVEKHMSRCRNAYFSCIDCGKTFER-VSYKNHTKCITEAQKYG 58 (276)
T ss_pred EEehhhhhhhccc-cchHHHHHhccCCeeEEeeccccccc-chhhhhhhhcchHHHhh
Confidence 3778888877654 456778887555778998 9999987 77888876555444443
No 71
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=72.22 E-value=1.3 Score=33.91 Aligned_cols=26 Identities=23% Similarity=0.625 Sum_probs=13.8
Q ss_pred CCccccccccCccccchhhhhhhhcc
Q 011334 137 GEKKWKCEKCSKKYAVQSDWKAHSKT 162 (488)
Q Consensus 137 geKpy~C~~Cgk~F~~ks~L~~H~rt 162 (488)
||.-++|+.|++.|....++.+|...
T Consensus 14 GE~~lrCPRC~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 14 GEEFLRCPRCGMVFRRRKDYIRHVNK 39 (65)
T ss_pred CceeeeCCchhHHHHHhHHHHHHhhH
Confidence 44445555555555555555555443
No 72
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=70.64 E-value=2.1 Score=32.81 Aligned_cols=29 Identities=28% Similarity=0.673 Sum_probs=25.4
Q ss_pred cCCcceecC-CCCccCChHHHHHHHHHhcC
Q 011334 163 CGTREYKCD-CGTLFSRKDSFITHRAFCDA 191 (488)
Q Consensus 163 ~geKpy~C~-CgKsFs~ks~L~~H~r~H~~ 191 (488)
-||.-++|+ ||+.|.+...+.+|...-|+
T Consensus 13 DGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 13 DGEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred CCceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 588889999 99999999999999876554
No 73
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=69.94 E-value=2 Score=41.91 Aligned_cols=22 Identities=23% Similarity=0.478 Sum_probs=12.8
Q ss_pred ccccccccCccccchhhhhhhh
Q 011334 139 KKWKCEKCSKKYAVQSDWKAHS 160 (488)
Q Consensus 139 Kpy~C~~Cgk~F~~ks~L~~H~ 160 (488)
|.+.|++|++.|.++.-+....
T Consensus 4 k~~~CPvC~~~F~~~~vrs~~~ 25 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKVRSGKI 25 (214)
T ss_pred CceECCCCCCeeeeeEEEcCCc
Confidence 4566777777776654444333
No 74
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=69.60 E-value=2.4 Score=35.49 Aligned_cols=34 Identities=32% Similarity=0.647 Sum_probs=20.2
Q ss_pred CceeecCCCcccCCCCCCccCChhhhhhhhccccCCccccccccCccccch
Q 011334 103 KKVYICPEKTCVHHEPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQ 153 (488)
Q Consensus 103 ~kpy~C~~C~C~~~~c~k~F~~~s~L~~H~r~HtgeKpy~C~~Cgk~F~~k 153 (488)
...|.|+.| ++. .+.|.-+| -|.|..|+..|+--
T Consensus 33 ~~~~~Cp~C-------~~~--------~VkR~a~G--IW~C~kCg~~fAGg 66 (89)
T COG1997 33 RAKHVCPFC-------GRT--------TVKRIATG--IWKCRKCGAKFAGG 66 (89)
T ss_pred hcCCcCCCC-------CCc--------ceeeeccC--eEEcCCCCCeeccc
Confidence 456778777 432 33444443 47788888777643
No 75
>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=68.71 E-value=2.8 Score=36.59 Aligned_cols=13 Identities=38% Similarity=0.818 Sum_probs=6.4
Q ss_pred cceecC-CCCccCC
Q 011334 166 REYKCD-CGTLFSR 178 (488)
Q Consensus 166 Kpy~C~-CgKsFs~ 178 (488)
.|-.|+ ||..|.-
T Consensus 25 ~PivCP~CG~~~~~ 38 (108)
T PF09538_consen 25 DPIVCPKCGTEFPP 38 (108)
T ss_pred CCccCCCCCCccCc
Confidence 444555 5555543
No 76
>KOG4377 consensus Zn-finger protein [General function prediction only]
Probab=66.19 E-value=5.1 Score=42.42 Aligned_cols=116 Identities=15% Similarity=0.285 Sum_probs=67.0
Q ss_pred ceec--CccccccCChHHHHHHHHhcCCCcccccccccccccC----ceeecCCCcccCCCCCCccCChhhhhhhhcccc
Q 011334 63 RFIC--EICNKGFQRDQNLQLHRRGHNLPWKLRQRTNKDVIKK----KVYICPEKTCVHHEPSRALGDLTGIKKHFSRKH 136 (488)
Q Consensus 63 py~C--~~CgK~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~~----kpy~C~~C~C~~~~c~k~F~~~s~L~~H~r~Ht 136 (488)
-|.| +.|+..+..+....+|..+|.... +.-..+- ..|.|-. ..|.+ ..+....|..-|+
T Consensus 271 hyhcl~e~C~ykr~~k~DvirH~~~hkkrd------nsL~dgf~rfs~syhC~~-----~~C~k---sTsdV~~h~nFht 336 (480)
T KOG4377|consen 271 HYHCLNEYCFYKRGQKNDVIRHVEIHKKRD------NSLIDGFHRFSNSYHCTG-----QICEK---STSDVLLHDNFHT 336 (480)
T ss_pred hhcccCccccccccchhhhHHHHHHHhhcc------cccccchhhcCccchhhh-----cccCc---ccccccccCcccc
Confidence 3666 358887777899999999985110 0000111 1244443 34466 4455666766665
Q ss_pred CC-------ccccccccC--ccccchhhhhhhhcc-cCC------------------------cceecC---CCCccCCh
Q 011334 137 GE-------KKWKCEKCS--KKYAVQSDWKAHSKT-CGT------------------------REYKCD---CGTLFSRK 179 (488)
Q Consensus 137 ge-------Kpy~C~~Cg--k~F~~ks~L~~H~rt-~ge------------------------Kpy~C~---CgKsFs~k 179 (488)
.. .-|.|..|+ ..|+...+-..|.+- -++ -.|.|+ |+.+|...
T Consensus 337 ~~~n~GfrrthfhC~r~gCTdtfK~~khk~yh~kdda~~~dGfkkf~k~e~cay~gCkys~~cnhfhc~r~Gc~~tl~s~ 416 (480)
T KOG4377|consen 337 DKRNNGFRRTHFHCQRIGCTDTFKDSKHKPYHYKDDAGEIDGFKKFFKDENCAYTGCKYSGICNHFHCDRLGCEATLYSV 416 (480)
T ss_pred ccccCceecceeEEeccCCccccccccccccccCcchhhhhhhhhhhccccCCccCcccccceeeeeecccCCceEEEeh
Confidence 31 236787777 444433222233221 011 116676 99999999
Q ss_pred HHHHHHHHHhcCC
Q 011334 180 DSFITHRAFCDAL 192 (488)
Q Consensus 180 s~L~~H~r~H~~~ 192 (488)
+.+..|+|.|...
T Consensus 417 sqm~shkrkheRq 429 (480)
T KOG4377|consen 417 SQMASHKRKHERQ 429 (480)
T ss_pred hhhhhhhhhhhhh
Confidence 9999999998653
No 77
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=65.98 E-value=2 Score=44.53 Aligned_cols=29 Identities=7% Similarity=-0.196 Sum_probs=21.4
Q ss_pred ccCCCCceecCccccccCChHHHHHH-HHhc
Q 011334 57 TLMATNRFICEICNKGFQRDQNLQLH-RRGH 86 (488)
Q Consensus 57 ~~~~~kpy~C~~CgK~F~~~~~L~~H-~r~H 86 (488)
..+..++|+| .|++.+.+...|+.| +..|
T Consensus 207 ~~t~~~p~k~-~~~~~~~T~~~l~~HS~N~~ 236 (442)
T KOG4124|consen 207 AETTGTPKKM-PESLVMDTSSPLSDHSMNID 236 (442)
T ss_pred cccccCCccC-cccccccccchhhhccccCC
Confidence 3345578888 589999999998888 3444
No 78
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=65.86 E-value=5.7 Score=35.91 Aligned_cols=22 Identities=32% Similarity=0.430 Sum_probs=19.4
Q ss_pred ceecCccccccCChHHHHHHHHhcC
Q 011334 63 RFICEICNKGFQRDQNLQLHRRGHN 87 (488)
Q Consensus 63 py~C~~CgK~F~~~~~L~~H~r~H~ 87 (488)
-..|-+|||.|+ .|++|..+|.
T Consensus 76 ~IicLEDGkkfK---SLKRHL~t~~ 97 (148)
T COG4957 76 YIICLEDGKKFK---SLKRHLTTHY 97 (148)
T ss_pred eEEEeccCcchH---HHHHHHhccc
Confidence 368999999998 5999999987
No 79
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=63.68 E-value=4.9 Score=37.77 Aligned_cols=26 Identities=31% Similarity=0.643 Sum_probs=19.8
Q ss_pred CceeecCCCcccCCCCCCccCChhhhhhhhccccCCccccccccCc
Q 011334 103 KKVYICPEKTCVHHEPSRALGDLTGIKKHFSRKHGEKKWKCEKCSK 148 (488)
Q Consensus 103 ~kpy~C~~C~C~~~~c~k~F~~~s~L~~H~r~HtgeKpy~C~~Cgk 148 (488)
.+.|+|++| |. +|.|+-|.+|++|+.
T Consensus 132 ~~~~vC~vC-------Gy-------------~~~ge~P~~CPiCga 157 (166)
T COG1592 132 GKVWVCPVC-------GY-------------THEGEAPEVCPICGA 157 (166)
T ss_pred CCEEEcCCC-------CC-------------cccCCCCCcCCCCCC
Confidence 347999999 43 456788999999984
No 80
>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=61.61 E-value=5.4 Score=27.07 Aligned_cols=10 Identities=30% Similarity=1.076 Sum_probs=7.3
Q ss_pred ccccccccCc
Q 011334 139 KKWKCEKCSK 148 (488)
Q Consensus 139 Kpy~C~~Cgk 148 (488)
.++.|++|+.
T Consensus 16 ~~~~CP~Cg~ 25 (33)
T cd00350 16 APWVCPVCGA 25 (33)
T ss_pred CCCcCcCCCC
Confidence 5778888865
No 81
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=57.59 E-value=7.5 Score=34.19 Aligned_cols=46 Identities=15% Similarity=0.389 Sum_probs=26.9
Q ss_pred ccccCccccchhhhhhhhcccCCcceecC-CCCccCChHHHHHHHHHh
Q 011334 143 CEKCSKKYAVQSDWKAHSKTCGTREYKCD-CGTLFSRKDSFITHRAFC 189 (488)
Q Consensus 143 C~~Cgk~F~~ks~L~~H~rt~geKpy~C~-CgKsFs~ks~L~~H~r~H 189 (488)
|--|.+.|........- .......|+|+ |...|--.-..-.|...|
T Consensus 58 C~~C~~~f~~~~~~~~~-~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh 104 (112)
T TIGR00622 58 CFGCQGPFPKPPVSPFD-ELKDSHRYVCAVCKNVFCVDCDVFVHESLH 104 (112)
T ss_pred ccCcCCCCCCccccccc-ccccccceeCCCCCCccccccchhhhhhcc
Confidence 77777777654311100 01233467787 887777776666776665
No 82
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=57.57 E-value=17 Score=40.46 Aligned_cols=30 Identities=20% Similarity=0.361 Sum_probs=26.1
Q ss_pred cCCCCceecCccccccCChHHHHHHHHhcC
Q 011334 58 LMATNRFICEICNKGFQRDQNLQLHRRGHN 87 (488)
Q Consensus 58 ~~~~kpy~C~~CgK~F~~~~~L~~H~r~H~ 87 (488)
.-..++-+|..||..|........||..|.
T Consensus 413 Ly~~~pnqC~~CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 413 LYKDSPNQCKSCGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred hccCCcchhcccccccccchhhhhHhhhhh
Confidence 345678999999999999999999999885
No 83
>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=56.58 E-value=1.7 Score=44.22 Aligned_cols=33 Identities=21% Similarity=0.448 Sum_probs=10.4
Q ss_pred ccccccCccccchhhhhhhhcccCCcceecC-CC
Q 011334 141 WKCEKCSKKYAVQSDWKAHSKTCGTREYKCD-CG 173 (488)
Q Consensus 141 y~C~~Cgk~F~~ks~L~~H~rt~geKpy~C~-Cg 173 (488)
.+|+.||..-..+..+..-...-+.|-+.|+ |+
T Consensus 212 ~~Cp~Cg~~~~~~l~~~~~e~~~~~rve~C~~C~ 245 (290)
T PF04216_consen 212 IKCPYCGNTDHEKLEYFTVEGEPAYRVEVCESCG 245 (290)
T ss_dssp TS-TTT---SS-EEE--------SEEEEEETTTT
T ss_pred CCCcCCCCCCCcceeeEecCCCCcEEEEECCccc
Confidence 4577776653322221100001234556676 66
No 84
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=55.70 E-value=9 Score=39.53 Aligned_cols=10 Identities=10% Similarity=0.042 Sum_probs=5.4
Q ss_pred cCceeecCCC
Q 011334 102 KKKVYICPEK 111 (488)
Q Consensus 102 ~~kpy~C~~C 111 (488)
+.+...|..|
T Consensus 209 G~RyL~CslC 218 (309)
T PRK03564 209 GLRYLHCNLC 218 (309)
T ss_pred CceEEEcCCC
Confidence 4455555555
No 85
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=54.92 E-value=7.8 Score=43.90 Aligned_cols=27 Identities=30% Similarity=0.508 Sum_probs=24.9
Q ss_pred CCceecCccccccCChHHHHHHHHhcC
Q 011334 61 TNRFICEICNKGFQRDQNLQLHRRGHN 87 (488)
Q Consensus 61 ~kpy~C~~CgK~F~~~~~L~~H~r~H~ 87 (488)
...|.|.+|+|.|.....+..||++|.
T Consensus 790 ~giFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 790 TGIFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred CceeehHHHHHHHHHHhhhhHHHHHHH
Confidence 456999999999999999999999996
No 86
>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=54.90 E-value=8.3 Score=26.66 Aligned_cols=13 Identities=23% Similarity=0.820 Sum_probs=6.3
Q ss_pred cccccCccccchh
Q 011334 142 KCEKCSKKYAVQS 154 (488)
Q Consensus 142 ~C~~Cgk~F~~ks 154 (488)
+|+.|+..|....
T Consensus 4 ~CP~C~~~~~v~~ 16 (38)
T TIGR02098 4 QCPNCKTSFRVVD 16 (38)
T ss_pred ECCCCCCEEEeCH
Confidence 4555555544443
No 87
>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=54.36 E-value=7 Score=35.37 Aligned_cols=27 Identities=26% Similarity=0.405 Sum_probs=16.6
Q ss_pred cceecC-CCCccCChHHHHHHHHHhcCCCcc
Q 011334 166 REYKCD-CGTLFSRKDSFITHRAFCDALAEE 195 (488)
Q Consensus 166 Kpy~C~-CgKsFs~ks~L~~H~r~H~~~~~~ 195 (488)
.-..|- |||.|.. |++|++.||+..+.
T Consensus 71 d~i~clecGk~~k~---LkrHL~~~~gltp~ 98 (132)
T PF05443_consen 71 DYIICLECGKKFKT---LKRHLRTHHGLTPE 98 (132)
T ss_dssp S-EE-TBT--EESB---HHHHHHHTT-S-HH
T ss_pred CeeEEccCCcccch---HHHHHHHccCCCHH
Confidence 345676 9999975 69999999888765
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=54.24 E-value=7.5 Score=34.85 Aligned_cols=29 Identities=17% Similarity=0.251 Sum_probs=16.6
Q ss_pred ccccccCccccchhhhhhhhcccCCcceecC-CCCccCCh
Q 011334 141 WKCEKCSKKYAVQSDWKAHSKTCGTREYKCD-CGTLFSRK 179 (488)
Q Consensus 141 y~C~~Cgk~F~~ks~L~~H~rt~geKpy~C~-CgKsFs~k 179 (488)
+.|+.||++|... +..|..|. ||..|...
T Consensus 10 r~Cp~cg~kFYDL----------nk~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 10 RICPNTGSKFYDL----------NRRPAVSPYTGEQFPPE 39 (129)
T ss_pred ccCCCcCcccccc----------CCCCccCCCcCCccCcc
Confidence 4666666666432 23566666 66666544
No 89
>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=53.68 E-value=17 Score=37.56 Aligned_cols=11 Identities=9% Similarity=0.108 Sum_probs=6.7
Q ss_pred cCceeecCCCc
Q 011334 102 KKKVYICPEKT 112 (488)
Q Consensus 102 ~~kpy~C~~C~ 112 (488)
+.+...|..|.
T Consensus 207 G~RyL~CslC~ 217 (305)
T TIGR01562 207 GLRYLSCSLCA 217 (305)
T ss_pred CceEEEcCCCC
Confidence 45566666663
No 90
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=51.40 E-value=4.9 Score=39.16 Aligned_cols=24 Identities=21% Similarity=0.513 Sum_probs=17.7
Q ss_pred CCceecCccccccCChHHHHHHHH
Q 011334 61 TNRFICEICNKGFQRDQNLQLHRR 84 (488)
Q Consensus 61 ~kpy~C~~CgK~F~~~~~L~~H~r 84 (488)
++.+.|++|++.|.++.-.....+
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r 26 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIR 26 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCce
Confidence 366899999999998765444433
No 91
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=51.40 E-value=11 Score=43.24 Aligned_cols=23 Identities=22% Similarity=0.665 Sum_probs=13.7
Q ss_pred ccccccccCccccchhhhhhhhcccCCcceecC-CCCc
Q 011334 139 KKWKCEKCSKKYAVQSDWKAHSKTCGTREYKCD-CGTL 175 (488)
Q Consensus 139 Kpy~C~~Cgk~F~~ks~L~~H~rt~geKpy~C~-CgKs 175 (488)
+..+|.+||+. ...|..|+ ||-.
T Consensus 461 ~~L~CH~Cg~~--------------~~~p~~Cp~Cgs~ 484 (730)
T COG1198 461 GQLRCHYCGYQ--------------EPIPQSCPECGSE 484 (730)
T ss_pred CeeEeCCCCCC--------------CCCCCCCCCCCCC
Confidence 44667666643 34567777 7754
No 92
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=51.28 E-value=4.5 Score=39.60 Aligned_cols=31 Identities=19% Similarity=0.377 Sum_probs=17.8
Q ss_pred CCcceecC-CCCccCChHHHHHHHHHhcCCCc
Q 011334 164 GTREYKCD-CGTLFSRKDSFITHRAFCDALAE 194 (488)
Q Consensus 164 geKpy~C~-CgKsFs~ks~L~~H~r~H~~~~~ 194 (488)
.+..|.|. |+|.|.-..-.++|+..-|.++-
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~nKH~e~v 105 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFNKHPEKV 105 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHHH-HHHH
T ss_pred cCCEECCCCCCcccCChHHHHHHHhhcCHHHH
Confidence 44557777 77777777777777666555443
No 93
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=51.01 E-value=12 Score=27.70 Aligned_cols=19 Identities=37% Similarity=0.777 Sum_probs=9.7
Q ss_pred ecC-CCCccCCh-----HHHHHHHH
Q 011334 169 KCD-CGTLFSRK-----DSFITHRA 187 (488)
Q Consensus 169 ~C~-CgKsFs~k-----s~L~~H~r 187 (488)
.|. |++.+... +.|.+|++
T Consensus 20 ~C~~C~~~l~~~~~~gTs~L~rHl~ 44 (50)
T smart00614 20 KCKYCGKKLSRSSKGGTSNLRRHLR 44 (50)
T ss_pred EecCCCCEeeeCCCCCcHHHHHHHH
Confidence 444 55544433 45666655
No 94
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=50.36 E-value=14 Score=33.77 Aligned_cols=15 Identities=33% Similarity=0.868 Sum_probs=8.2
Q ss_pred cccccccCccccchh
Q 011334 140 KWKCEKCSKKYAVQS 154 (488)
Q Consensus 140 py~C~~Cgk~F~~ks 154 (488)
-|.|+.|++.|....
T Consensus 99 ~Y~Cp~C~~~y~~~e 113 (147)
T smart00531 99 YYKCPNCQSKYTFLE 113 (147)
T ss_pred EEECcCCCCEeeHHH
Confidence 455666665555433
No 95
>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=49.58 E-value=12 Score=33.80 Aligned_cols=25 Identities=36% Similarity=0.697 Sum_probs=17.1
Q ss_pred CCCceecCccccccCChHHHHHHHHhcC
Q 011334 60 ATNRFICEICNKGFQRDQNLQLHRRGHN 87 (488)
Q Consensus 60 ~~kpy~C~~CgK~F~~~~~L~~H~r~H~ 87 (488)
.+.-..|-+|||.|+. |++|.+.|+
T Consensus 69 ~~d~i~clecGk~~k~---LkrHL~~~~ 93 (132)
T PF05443_consen 69 TPDYIICLECGKKFKT---LKRHLRTHH 93 (132)
T ss_dssp -SS-EE-TBT--EESB---HHHHHHHTT
T ss_pred ccCeeEEccCCcccch---HHHHHHHcc
Confidence 3455899999999986 699999996
No 96
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=48.82 E-value=14 Score=25.72 Aligned_cols=31 Identities=29% Similarity=0.827 Sum_probs=14.2
Q ss_pred cccccCccccchhhhhhhhcccCCcceecC-CCCcc
Q 011334 142 KCEKCSKKYAVQSDWKAHSKTCGTREYKCD-CGTLF 176 (488)
Q Consensus 142 ~C~~Cgk~F~~ks~L~~H~rt~geKpy~C~-CgKsF 176 (488)
.|+.|+..|........ -..+..+|. |+..|
T Consensus 4 ~Cp~C~~~y~i~d~~ip----~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEKIP----PKGRKVRCSKCGHVF 35 (36)
T ss_pred ECCCCCCEEeCCHHHCC----CCCcEEECCCCCCEe
Confidence 45555555554443211 122345555 55554
No 97
>PRK04023 DNA polymerase II large subunit; Validated
Probab=48.42 E-value=41 Score=39.93 Aligned_cols=12 Identities=33% Similarity=0.631 Sum_probs=7.8
Q ss_pred CCceecCccccc
Q 011334 61 TNRFICEICNKG 72 (488)
Q Consensus 61 ~kpy~C~~CgK~ 72 (488)
.....|+.||+.
T Consensus 624 Vg~RfCpsCG~~ 635 (1121)
T PRK04023 624 IGRRKCPSCGKE 635 (1121)
T ss_pred ccCccCCCCCCc
Confidence 345677777775
No 98
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=48.05 E-value=7.9 Score=31.36 Aligned_cols=8 Identities=25% Similarity=0.891 Sum_probs=4.0
Q ss_pred cccccCcc
Q 011334 142 KCEKCSKK 149 (488)
Q Consensus 142 ~C~~Cgk~ 149 (488)
.|+.|+..
T Consensus 3 ~CP~Cg~~ 10 (72)
T PRK09678 3 HCPLCQHA 10 (72)
T ss_pred cCCCCCCc
Confidence 45555544
No 99
>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=47.50 E-value=13 Score=37.28 Aligned_cols=24 Identities=13% Similarity=0.267 Sum_probs=13.8
Q ss_pred cceecC-CCCccCChHHHHHHHHHh
Q 011334 166 REYKCD-CGTLFSRKDSFITHRAFC 189 (488)
Q Consensus 166 Kpy~C~-CgKsFs~ks~L~~H~r~H 189 (488)
+++.|+ ||.-......|..-.|.|
T Consensus 208 k~~PCPKCg~et~eTkdLSmStR~h 232 (314)
T PF06524_consen 208 KPIPCPKCGYETQETKDLSMSTRSH 232 (314)
T ss_pred CCCCCCCCCCcccccccceeeeecc
Confidence 666777 776555555554444444
No 100
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=47.38 E-value=21 Score=31.47 Aligned_cols=74 Identities=9% Similarity=0.083 Sum_probs=40.1
Q ss_pred CccccccccCccccchhhhhhhhcc------c-------CCcceecC-CCCccCChHHHHHHHHHhcCCCccchhhhchh
Q 011334 138 EKKWKCEKCSKKYAVQSDWKAHSKT------C-------GTREYKCD-CGTLFSRKDSFITHRAFCDALAEESTRLASSV 203 (488)
Q Consensus 138 eKpy~C~~Cgk~F~~ks~L~~H~rt------~-------geKpy~C~-CgKsFs~ks~L~~H~r~H~~~~~~~C~~C~~s 203 (488)
+-|-+|++|+-+.....+|.|-... - ..+...|- |.+.|.......+ ..-.....|.|+.|...
T Consensus 13 ~LP~~CpiCgLtLVss~HLARSyHHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~~--~~~~~~~~y~C~~C~~~ 90 (112)
T TIGR00622 13 ELPVECPICGLTLILSTHLARSYHHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSPF--DELKDSHRYVCAVCKNV 90 (112)
T ss_pred CCCCcCCcCCCEEeccchHHHhhhccCCCcccccccccccCCCCcccCcCCCCCCcccccc--cccccccceeCCCCCCc
Confidence 3456677777776666666542111 0 01122498 9999986532110 00122346789999888
Q ss_pred ccccCCCccc
Q 011334 204 VAAASNLNFR 213 (488)
Q Consensus 204 f~~~s~L~~~ 213 (488)
|=-.-++=.|
T Consensus 91 FC~dCD~fiH 100 (112)
T TIGR00622 91 FCVDCDVFVH 100 (112)
T ss_pred cccccchhhh
Confidence 7654444333
No 101
>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=45.74 E-value=18 Score=25.80 Aligned_cols=26 Identities=23% Similarity=0.470 Sum_probs=17.1
Q ss_pred CCCceecCccccccCCh----HHHHHHHHh
Q 011334 60 ATNRFICEICNKGFQRD----QNLQLHRRG 85 (488)
Q Consensus 60 ~~kpy~C~~CgK~F~~~----~~L~~H~r~ 85 (488)
.....+|..|++.+... ..|.+|++.
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 45668999999998875 789999843
No 102
>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=44.04 E-value=12 Score=34.78 Aligned_cols=29 Identities=7% Similarity=0.108 Sum_probs=18.1
Q ss_pred cceecC-CCCccCChHHHHHHHHHhcCCCccchhhhchh
Q 011334 166 REYKCD-CGTLFSRKDSFITHRAFCDALAEESTRLASSV 203 (488)
Q Consensus 166 Kpy~C~-CgKsFs~ks~L~~H~r~H~~~~~~~C~~C~~s 203 (488)
.-|.|+ |++.|+.-..+. ..|.|+.||..
T Consensus 108 ~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~ 137 (158)
T TIGR00373 108 MFFICPNMCVRFTFNEAME---------LNFTCPRCGAM 137 (158)
T ss_pred CeEECCCCCcEeeHHHHHH---------cCCcCCCCCCE
Confidence 446677 777776666663 25677777643
No 103
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=43.63 E-value=14 Score=36.90 Aligned_cols=22 Identities=18% Similarity=0.650 Sum_probs=11.3
Q ss_pred eecCccccccCChHHHHHHHHhc
Q 011334 64 FICEICNKGFQRDQNLQLHRRGH 86 (488)
Q Consensus 64 y~C~~CgK~F~~~~~L~~H~r~H 86 (488)
|.|..||...... .+.+|+-..
T Consensus 4 FtCnvCgEsvKKp-~vekH~srC 25 (276)
T KOG2186|consen 4 FTCNVCGESVKKP-QVEKHMSRC 25 (276)
T ss_pred Eehhhhhhhcccc-chHHHHHhc
Confidence 5566666554432 344555444
No 104
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=43.26 E-value=17 Score=25.32 Aligned_cols=12 Identities=25% Similarity=0.946 Sum_probs=5.4
Q ss_pred cccccCccccch
Q 011334 142 KCEKCSKKYAVQ 153 (488)
Q Consensus 142 ~C~~Cgk~F~~k 153 (488)
.|+.|+..|...
T Consensus 4 ~CP~C~~~f~v~ 15 (37)
T PF13719_consen 4 TCPNCQTRFRVP 15 (37)
T ss_pred ECCCCCceEEcC
Confidence 344444444433
No 105
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=43.13 E-value=12 Score=34.66 Aligned_cols=44 Identities=18% Similarity=0.236 Sum_probs=25.7
Q ss_pred CCCCCCCCCCchhHhhcCccccCCCCceecCccccccCChHHHH
Q 011334 37 KRNLPGTPDPDAEVIALSPKTLMATNRFICEICNKGFQRDQNLQ 80 (488)
Q Consensus 37 k~~~p~~~~~~~~~l~~~~k~~~~~kpy~C~~CgK~F~~~~~L~ 80 (488)
+|+.|+.++..........+...-.+.++|+.||+.|.....+.
T Consensus 2 ~cp~c~~~~~~~~~s~~~~~~~~~~~~~~c~~c~~~f~~~e~~~ 45 (154)
T PRK00464 2 RCPFCGHPDTRVIDSRPAEDGNAIRRRRECLACGKRFTTFERVE 45 (154)
T ss_pred cCCCCCCCCCEeEeccccCCCCceeeeeeccccCCcceEeEecc
Confidence 57788877733222221222212224499999999998866543
No 106
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=42.66 E-value=12 Score=35.62 Aligned_cols=28 Identities=11% Similarity=0.166 Sum_probs=14.9
Q ss_pred cceecC-CCCccCChHHHHHHHHHhcCCCccchhhhch
Q 011334 166 REYKCD-CGTLFSRKDSFITHRAFCDALAEESTRLASS 202 (488)
Q Consensus 166 Kpy~C~-CgKsFs~ks~L~~H~r~H~~~~~~~C~~C~~ 202 (488)
.-|.|+ |++.|+.-..+. ..|.|+.|+.
T Consensus 116 ~~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~ 144 (178)
T PRK06266 116 MFFFCPNCHIRFTFDEAME---------YGFRCPQCGE 144 (178)
T ss_pred CEEECCCCCcEEeHHHHhh---------cCCcCCCCCC
Confidence 345666 666665554442 2456666653
No 107
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=42.25 E-value=13 Score=38.79 Aligned_cols=37 Identities=22% Similarity=0.329 Sum_probs=29.0
Q ss_pred CcceecC-CCCccCChHHHHHHHHHhcCCCcc--chhhhc
Q 011334 165 TREYKCD-CGTLFSRKDSFITHRAFCDALAEE--STRLAS 201 (488)
Q Consensus 165 eKpy~C~-CgKsFs~ks~L~~H~r~H~~~~~~--~C~~C~ 201 (488)
+..|.|. |++.=.+...|..|...-|.+... .|.+|.
T Consensus 77 ~qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~ 116 (381)
T KOG1280|consen 77 PQSFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCA 116 (381)
T ss_pred cccccCCcccccccchhHHHHHhhhcCcccCcceeeeccc
Confidence 3579999 998878888999998877766654 777886
No 108
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=40.98 E-value=7.9 Score=40.26 Aligned_cols=26 Identities=19% Similarity=0.692 Sum_probs=20.6
Q ss_pred CCCceecCc--cccccCChHHHHHHHHh
Q 011334 60 ATNRFICEI--CNKGFQRDQNLQLHRRG 85 (488)
Q Consensus 60 ~~kpy~C~~--CgK~F~~~~~L~~H~r~ 85 (488)
..++|+|++ |.+.++....|+.|...
T Consensus 346 ~~~~~~~~vp~~~~~~~n~ng~~~~~~~ 373 (442)
T KOG4124|consen 346 VDKPYKCPVPNCDKAYKNQNGLKYHKLH 373 (442)
T ss_pred ecCCCCCCCCcchhhcccCcceeecccc
Confidence 457899976 99999998888877543
No 109
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=39.54 E-value=16 Score=33.87 Aligned_cols=32 Identities=28% Similarity=0.857 Sum_probs=18.1
Q ss_pred ccccccccCccccchhhhhhhhcc-cCCcceecC-CCCc
Q 011334 139 KKWKCEKCSKKYAVQSDWKAHSKT-CGTREYKCD-CGTL 175 (488)
Q Consensus 139 Kpy~C~~Cgk~F~~ks~L~~H~rt-~geKpy~C~-CgKs 175 (488)
-+|.|. |+..|.+. ++|-+. -|+ .|.|. |+-.
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 357777 77665443 344333 454 67777 7643
No 110
>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=38.42 E-value=20 Score=33.21 Aligned_cols=32 Identities=13% Similarity=0.572 Sum_probs=21.0
Q ss_pred CCccccccccCccccchhhhhhhhcccCCcceecC-CCCcc
Q 011334 137 GEKKWKCEKCSKKYAVQSDWKAHSKTCGTREYKCD-CGTLF 176 (488)
Q Consensus 137 geKpy~C~~Cgk~F~~ks~L~~H~rt~geKpy~C~-CgKsF 176 (488)
...-|.|+.|+.+|..-..+. .-|.|+ ||...
T Consensus 106 ~~~~Y~Cp~c~~r~tf~eA~~--------~~F~Cp~Cg~~L 138 (158)
T TIGR00373 106 NNMFFICPNMCVRFTFNEAME--------LNFTCPRCGAML 138 (158)
T ss_pred CCCeEECCCCCcEeeHHHHHH--------cCCcCCCCCCEe
Confidence 344577777777777766664 247777 77653
No 111
>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=36.65 E-value=30 Score=30.17 Aligned_cols=34 Identities=18% Similarity=0.343 Sum_probs=26.4
Q ss_pred cccCCCCCCCCCCCCchhHhhcCccccCCCCceecCccccccCCh
Q 011334 32 AASKKKRNLPGTPDPDAEVIALSPKTLMATNRFICEICNKGFQRD 76 (488)
Q Consensus 32 ~~~k~k~~~p~~~~~~~~~l~~~~k~~~~~kpy~C~~CgK~F~~~ 76 (488)
...|+.|..|+..|... .+.|..|+.||..|.-.
T Consensus 6 lGtKR~Cp~CG~kFYDL-----------nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 6 LGTKRTCPSCGAKFYDL-----------NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred cCCcccCCCCcchhccC-----------CCCCccCCCCCCccCcc
Confidence 45678888899888762 33678899999998876
No 112
>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=35.28 E-value=25 Score=31.56 Aligned_cols=19 Identities=5% Similarity=0.083 Sum_probs=12.0
Q ss_pred ccccccccCccccchhhhh
Q 011334 139 KKWKCEKCSKKYAVQSDWK 157 (488)
Q Consensus 139 Kpy~C~~Cgk~F~~ks~L~ 157 (488)
.|..|++||..|.....++
T Consensus 25 ~p~vcP~cg~~~~~~~~~~ 43 (129)
T TIGR02300 25 RPAVSPYTGEQFPPEEALK 43 (129)
T ss_pred CCccCCCcCCccCcchhhc
Confidence 5677777777775553333
No 113
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=34.97 E-value=20 Score=33.67 Aligned_cols=10 Identities=30% Similarity=0.999 Sum_probs=6.0
Q ss_pred cccccccCcc
Q 011334 140 KWKCEKCSKK 149 (488)
Q Consensus 140 py~C~~Cgk~ 149 (488)
-|.|++||..
T Consensus 134 ~~vC~vCGy~ 143 (166)
T COG1592 134 VWVCPVCGYT 143 (166)
T ss_pred EEEcCCCCCc
Confidence 3666666654
No 114
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=34.92 E-value=24 Score=33.51 Aligned_cols=32 Identities=16% Similarity=0.688 Sum_probs=22.7
Q ss_pred CccccccccCccccchhhhhhhhcccCCcceecC-CCCccC
Q 011334 138 EKKWKCEKCSKKYAVQSDWKAHSKTCGTREYKCD-CGTLFS 177 (488)
Q Consensus 138 eKpy~C~~Cgk~F~~ks~L~~H~rt~geKpy~C~-CgKsFs 177 (488)
..-|.|+.|+++|..-..+. .-|.|+ ||....
T Consensus 115 ~~~Y~Cp~C~~rytf~eA~~--------~~F~Cp~Cg~~L~ 147 (178)
T PRK06266 115 NMFFFCPNCHIRFTFDEAME--------YGFRCPQCGEMLE 147 (178)
T ss_pred CCEEECCCCCcEEeHHHHhh--------cCCcCCCCCCCCe
Confidence 34588888888887776653 258888 886544
No 115
>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=34.64 E-value=15 Score=31.00 Aligned_cols=11 Identities=73% Similarity=1.787 Sum_probs=7.8
Q ss_pred ccccccCcccc
Q 011334 141 WKCEKCSKKYA 151 (488)
Q Consensus 141 y~C~~Cgk~F~ 151 (488)
|+|..|++.|+
T Consensus 54 W~C~~C~~~~A 64 (90)
T PF01780_consen 54 WKCKKCGKKFA 64 (90)
T ss_dssp EEETTTTEEEE
T ss_pred eecCCCCCEEe
Confidence 77777777665
No 116
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=34.63 E-value=38 Score=35.79 Aligned_cols=77 Identities=19% Similarity=0.286 Sum_probs=50.6
Q ss_pred CCCceecCccccccCChHHHHHHHHhcCCCcccccccccccccCceeecCCCcccCCCCCCccCChhhhhhhhccccCCc
Q 011334 60 ATNRFICEICNKGFQRDQNLQLHRRGHNLPWKLRQRTNKDVIKKKVYICPEKTCVHHEPSRALGDLTGIKKHFSRKHGEK 139 (488)
Q Consensus 60 ~~kpy~C~~CgK~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~~kpy~C~~C~C~~~~c~k~F~~~s~L~~H~r~HtgeK 139 (488)
..-|-.|-.|++.|.....-..||..||+.+ +.++.|.-++- .|..-+...- ..
T Consensus 163 e~~Pt~CLfC~~~~k~~e~~~~HM~~~Hgff----------IPdreYL~D~~---------------GLl~YLgeKV-~~ 216 (390)
T KOG2785|consen 163 ELIPTDCLFCDKKSKSLEENLKHMFKEHGFF----------IPDREYLTDEK---------------GLLKYLGEKV-GI 216 (390)
T ss_pred ccCCcceeecCCCcccHHHHHHHHhhccCCc----------CCchHhhhchh---------------HHHHHHHHHh-cc
Confidence 3345789999999999999999999887432 23333433332 2222222111 12
Q ss_pred cccccccC---ccccchhhhhhhhcc
Q 011334 140 KWKCEKCS---KKYAVQSDWKAHSKT 162 (488)
Q Consensus 140 py~C~~Cg---k~F~~ks~L~~H~rt 162 (488)
-|.|-.|. +.|.+-...+.||..
T Consensus 217 ~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 217 GFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred CceEEEeccccCcccccHHHHHHHhh
Confidence 36788888 888888888899876
No 117
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=34.31 E-value=21 Score=34.95 Aligned_cols=30 Identities=23% Similarity=0.489 Sum_probs=23.4
Q ss_pred CCccccccccCccccchhhhhhhhcc-cCCc
Q 011334 137 GEKKWKCEKCSKKYAVQSDWKAHSKT-CGTR 166 (488)
Q Consensus 137 geKpy~C~~Cgk~F~~ks~L~~H~rt-~geK 166 (488)
.+..|.|..|+|.|.-..-++.|+.. |.++
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 45679999999999999999999988 7654
No 118
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=33.99 E-value=26 Score=25.39 Aligned_cols=10 Identities=20% Similarity=0.680 Sum_probs=4.9
Q ss_pred cccccccCcc
Q 011334 140 KWKCEKCSKK 149 (488)
Q Consensus 140 py~C~~Cgk~ 149 (488)
.++|+.||..
T Consensus 21 ~~~Cp~CG~~ 30 (46)
T PRK00398 21 GVRCPYCGYR 30 (46)
T ss_pred ceECCCCCCe
Confidence 3455555543
No 119
>PHA00626 hypothetical protein
Probab=33.81 E-value=21 Score=27.54 Aligned_cols=10 Identities=20% Similarity=0.640 Sum_probs=4.7
Q ss_pred ccccccCccc
Q 011334 141 WKCEKCSKKY 150 (488)
Q Consensus 141 y~C~~Cgk~F 150 (488)
|+|+.|+..|
T Consensus 24 YkCkdCGY~f 33 (59)
T PHA00626 24 YVCCDCGYND 33 (59)
T ss_pred eEcCCCCCee
Confidence 4444444444
No 120
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=33.57 E-value=29 Score=35.67 Aligned_cols=46 Identities=15% Similarity=0.430 Sum_probs=30.2
Q ss_pred ccccCccccchhhhhhhhcccCCcceecC-CCCccCChHHHHHHHHHh
Q 011334 143 CEKCSKKYAVQSDWKAHSKTCGTREYKCD-CGTLFSRKDSFITHRAFC 189 (488)
Q Consensus 143 C~~Cgk~F~~ks~L~~H~rt~geKpy~C~-CgKsFs~ks~L~~H~r~H 189 (488)
|-.|.-.|.....-..-.. +..-.|+|+ |...|-..-..-.|...|
T Consensus 365 Cf~CQ~~fp~~~~~~~~~~-~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 365 CFVCQGPFPKPPVSPFDES-TSSGRYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred ceeccCCCCCCCCCccccc-ccccceechhhhhhhhhhhHHHHHHHHh
Confidence 7777777755422111111 334569999 999998888887887776
No 121
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=33.54 E-value=22 Score=26.71 Aligned_cols=8 Identities=25% Similarity=0.908 Sum_probs=3.9
Q ss_pred ccccccCc
Q 011334 141 WKCEKCSK 148 (488)
Q Consensus 141 y~C~~Cgk 148 (488)
..|+.||.
T Consensus 25 irCp~Cg~ 32 (49)
T COG1996 25 IRCPYCGS 32 (49)
T ss_pred eeCCCCCc
Confidence 44555543
No 122
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=32.55 E-value=32 Score=36.89 Aligned_cols=37 Identities=27% Similarity=0.625 Sum_probs=25.0
Q ss_pred CCccccccccCccccchhhhhhhhcccCCcceecC-CCCc
Q 011334 137 GEKKWKCEKCSKKYAVQSDWKAHSKTCGTREYKCD-CGTL 175 (488)
Q Consensus 137 geKpy~C~~Cgk~F~~ks~L~~H~rt~geKpy~C~-CgKs 175 (488)
...-|.|+.|.++|..-..++.- .-.+-.|.|. |+--
T Consensus 125 ~~~~Y~Cp~C~kkyt~Lea~~L~--~~~~~~F~C~~C~ge 162 (436)
T KOG2593|consen 125 NVAGYVCPNCQKKYTSLEALQLL--DNETGEFHCENCGGE 162 (436)
T ss_pred ccccccCCccccchhhhHHHHhh--cccCceEEEecCCCc
Confidence 44569999999999776665421 1334568998 8753
No 123
>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=32.32 E-value=31 Score=23.62 Aligned_cols=10 Identities=30% Similarity=0.611 Sum_probs=6.6
Q ss_pred ccccccccCc
Q 011334 139 KKWKCEKCSK 148 (488)
Q Consensus 139 Kpy~C~~Cgk 148 (488)
.|..|++|+.
T Consensus 17 ~p~~CP~Cg~ 26 (34)
T cd00729 17 APEKCPICGA 26 (34)
T ss_pred CCCcCcCCCC
Confidence 4567777765
No 124
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=32.10 E-value=20 Score=27.01 Aligned_cols=39 Identities=18% Similarity=0.537 Sum_probs=16.3
Q ss_pred ccccccc-cCccccchhhhhhhhcc-cCCcceecC-----CCCccC
Q 011334 139 KKWKCEK-CSKKYAVQSDWKAHSKT-CGTREYKCD-----CGTLFS 177 (488)
Q Consensus 139 Kpy~C~~-Cgk~F~~ks~L~~H~rt-~geKpy~C~-----CgKsFs 177 (488)
.+..|+. |+..-..+..|..|... +..++-.|. |...+.
T Consensus 8 ~~v~C~~~cc~~~i~r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~ 53 (60)
T PF02176_consen 8 RPVPCPNGCCNEMIPRKELDDHLENECPKRPVPCPYSPYGCKERVP 53 (60)
T ss_dssp SEEE-TT--S-BEEECCCHHHHHHTTSTTSEEE-SS----S--EEE
T ss_pred CEeeCCCCCcccceeHHHHHHHHHccCCCCcEECCCCCCCCCCccc
Confidence 3455655 33222224456666663 555555553 555553
No 125
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=31.71 E-value=22 Score=32.30 Aligned_cols=26 Identities=23% Similarity=0.267 Sum_probs=19.4
Q ss_pred eecC-CCCccCChHHHHHHHHHhcCCCccc
Q 011334 168 YKCD-CGTLFSRKDSFITHRAFCDALAEES 196 (488)
Q Consensus 168 y~C~-CgKsFs~ks~L~~H~r~H~~~~~~~ 196 (488)
..|- |||.|. .|++|+.+|++..+..
T Consensus 77 IicLEDGkkfK---SLKRHL~t~~gmTPd~ 103 (148)
T COG4957 77 IICLEDGKKFK---SLKRHLTTHYGLTPDE 103 (148)
T ss_pred EEEeccCcchH---HHHHHHhcccCCCHHH
Confidence 5676 888885 5888888888876643
No 126
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=29.81 E-value=62 Score=32.41 Aligned_cols=34 Identities=32% Similarity=0.722 Sum_probs=21.7
Q ss_pred ccccccCccccchhhhhhhhcccCCcceecC-CCCccCC
Q 011334 141 WKCEKCSKKYAVQSDWKAHSKTCGTREYKCD-CGTLFSR 178 (488)
Q Consensus 141 y~C~~Cgk~F~~ks~L~~H~rt~geKpy~C~-CgKsFs~ 178 (488)
-+|..|.+.|.--.. -+.-|.-.|.|. |+..|.-
T Consensus 133 SRCr~C~~rYDPVP~----dkmwG~aef~C~~C~h~F~G 167 (278)
T PF15135_consen 133 SRCRKCRKRYDPVPC----DKMWGIAEFHCPKCRHNFRG 167 (278)
T ss_pred ccccccccccCCCcc----ccccceeeeecccccccchh
Confidence 568888877754321 122455668888 8888863
No 127
>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=29.71 E-value=23 Score=32.14 Aligned_cols=30 Identities=30% Similarity=1.032 Sum_probs=14.9
Q ss_pred cccccccCccccchhhhhhhhcccCCcceecC-CCCcc
Q 011334 140 KWKCEKCSKKYAVQSDWKAHSKTCGTREYKCD-CGTLF 176 (488)
Q Consensus 140 py~C~~Cgk~F~~ks~L~~H~rt~geKpy~C~-CgKsF 176 (488)
.|.|..|+..+ .+|.+. ..+.|.|. |+..|
T Consensus 123 ~~~C~~C~~~~------~r~~~~-~~~~~~C~~C~~~l 153 (157)
T PF10263_consen 123 VYRCPSCGREY------KRHRRS-KRKRYRCGRCGGPL 153 (157)
T ss_pred EEEcCCCCCEe------eeeccc-chhhEECCCCCCEE
Confidence 35666666554 223333 23346666 66544
No 128
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=29.65 E-value=30 Score=31.41 Aligned_cols=31 Identities=23% Similarity=0.843 Sum_probs=15.0
Q ss_pred cccccccCccccchhhhhhhhcccCCcceecC-CCCcc
Q 011334 140 KWKCEKCSKKYAVQSDWKAHSKTCGTREYKCD-CGTLF 176 (488)
Q Consensus 140 py~C~~Cgk~F~~ks~L~~H~rt~geKpy~C~-CgKsF 176 (488)
.|+|..|+..+. +|.|......|.|. |+-.+
T Consensus 112 ~y~C~~C~~~~~------~~rr~~~~~~y~C~~C~g~l 143 (146)
T smart00731 112 PYRCTGCGQRYL------RVRRSNNVSRYRCGKCGGKL 143 (146)
T ss_pred EEECCCCCCCCc------eEccccCcceEEcCCCCCEE
Confidence 466666665542 22222222456666 66544
No 129
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=29.38 E-value=39 Score=30.84 Aligned_cols=39 Identities=15% Similarity=0.417 Sum_probs=26.1
Q ss_pred cCceeecCCCcccCCCCCCccCChhhhhhhhccccCCccccccccCcccc
Q 011334 102 KKKVYICPEKTCVHHEPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYA 151 (488)
Q Consensus 102 ~~kpy~C~~C~C~~~~c~k~F~~~s~L~~H~r~HtgeKpy~C~~Cgk~F~ 151 (488)
....|.|+.| ++.|.....+..- +. +..|.|+.||....
T Consensus 96 ~~~~Y~Cp~C-------~~~y~~~ea~~~~---d~-~~~f~Cp~Cg~~l~ 134 (147)
T smart00531 96 NNAYYKCPNC-------QSKYTFLEANQLL---DM-DGTFTCPRCGEELE 134 (147)
T ss_pred CCcEEECcCC-------CCEeeHHHHHHhc---CC-CCcEECCCCCCEEE
Confidence 4568999998 8888755443320 11 33499999998754
No 130
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=28.50 E-value=58 Score=33.84 Aligned_cols=23 Identities=22% Similarity=0.713 Sum_probs=14.2
Q ss_pred ceecC-CCCccCChHHHHHHHHHh
Q 011334 167 EYKCD-CGTLFSRKDSFITHRAFC 189 (488)
Q Consensus 167 py~C~-CgKsFs~ks~L~~H~r~H 189 (488)
.|+|+ |.-.|----..-.|-..|
T Consensus 345 ~y~C~~Ck~~FCldCDv~iHesLh 368 (378)
T KOG2807|consen 345 RYRCESCKNVFCLDCDVFIHESLH 368 (378)
T ss_pred cEEchhccceeeccchHHHHhhhh
Confidence 36777 777776655555565554
No 131
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.38 E-value=30 Score=30.34 Aligned_cols=11 Identities=9% Similarity=0.166 Sum_probs=6.5
Q ss_pred cceecC-CCCcc
Q 011334 166 REYKCD-CGTLF 176 (488)
Q Consensus 166 Kpy~C~-CgKsF 176 (488)
+|..|+ ||++|
T Consensus 25 dPiVsPytG~s~ 36 (129)
T COG4530 25 DPIVSPYTGKSY 36 (129)
T ss_pred CccccCcccccc
Confidence 455566 66666
No 132
>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=27.32 E-value=27 Score=25.72 Aligned_cols=10 Identities=20% Similarity=0.561 Sum_probs=6.1
Q ss_pred ccccccccCc
Q 011334 139 KKWKCEKCSK 148 (488)
Q Consensus 139 Kpy~C~~Cgk 148 (488)
.+-.|+.|+.
T Consensus 25 ~~~~CP~Cg~ 34 (52)
T TIGR02605 25 PLATCPECGG 34 (52)
T ss_pred CCCCCCCCCC
Confidence 3456777765
No 133
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=27.19 E-value=31 Score=29.18 Aligned_cols=14 Identities=36% Similarity=0.909 Sum_probs=8.6
Q ss_pred ccccccccCccccc
Q 011334 139 KKWKCEKCSKKYAV 152 (488)
Q Consensus 139 Kpy~C~~Cgk~F~~ 152 (488)
..|.|..|++.|+-
T Consensus 53 GIW~C~~C~~~~AG 66 (90)
T PTZ00255 53 GIWRCKGCKKTVAG 66 (90)
T ss_pred EEEEcCCCCCEEeC
Confidence 34667777666653
No 134
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=27.17 E-value=26 Score=24.85 Aligned_cols=9 Identities=44% Similarity=1.361 Sum_probs=4.3
Q ss_pred eecC-CCCcc
Q 011334 168 YKCD-CGTLF 176 (488)
Q Consensus 168 y~C~-CgKsF 176 (488)
|.|. |+..|
T Consensus 29 y~C~~C~~~w 38 (40)
T smart00440 29 YVCTKCGHRW 38 (40)
T ss_pred EEeCCCCCEe
Confidence 4554 55443
No 135
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=27.10 E-value=34 Score=36.80 Aligned_cols=12 Identities=33% Similarity=0.980 Sum_probs=6.2
Q ss_pred ceecC-CCCccCC
Q 011334 167 EYKCD-CGTLFSR 178 (488)
Q Consensus 167 py~C~-CgKsFs~ 178 (488)
-|+|. ||+++..
T Consensus 367 g~rC~kCg~~~~~ 379 (421)
T COG1571 367 GFRCKKCGTRARE 379 (421)
T ss_pred CcccccccccCCc
Confidence 45555 5555543
No 136
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=26.99 E-value=32 Score=25.06 Aligned_cols=10 Identities=20% Similarity=0.943 Sum_probs=4.6
Q ss_pred ccccccCccc
Q 011334 141 WKCEKCSKKY 150 (488)
Q Consensus 141 y~C~~Cgk~F 150 (488)
|.|..||..|
T Consensus 3 Y~C~~Cg~~~ 12 (44)
T smart00659 3 YICGECGREN 12 (44)
T ss_pred EECCCCCCEe
Confidence 4444444444
No 137
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=26.94 E-value=25 Score=40.52 Aligned_cols=14 Identities=14% Similarity=0.477 Sum_probs=11.0
Q ss_pred cCCccccccccCcc
Q 011334 136 HGEKKWKCEKCSKK 149 (488)
Q Consensus 136 tgeKpy~C~~Cgk~ 149 (488)
....|..|+.||-.
T Consensus 471 ~~~~p~~Cp~Cgs~ 484 (730)
T COG1198 471 QEPIPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCCCCC
Confidence 45678999999865
No 138
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=26.78 E-value=44 Score=26.10 Aligned_cols=9 Identities=44% Similarity=1.368 Sum_probs=6.0
Q ss_pred cceecC-CCC
Q 011334 166 REYKCD-CGT 174 (488)
Q Consensus 166 Kpy~C~-CgK 174 (488)
.+|+|+ ||.
T Consensus 49 ~~Y~Cp~CGF 58 (61)
T COG2888 49 NPYRCPKCGF 58 (61)
T ss_pred CceECCCcCc
Confidence 567777 763
No 139
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=26.72 E-value=24 Score=31.95 Aligned_cols=12 Identities=17% Similarity=0.647 Sum_probs=6.5
Q ss_pred cccccCccccch
Q 011334 142 KCEKCSKKYAVQ 153 (488)
Q Consensus 142 ~C~~Cgk~F~~k 153 (488)
+|+.|.-+|+..
T Consensus 123 vCPvCkTSFKss 134 (140)
T PF05290_consen 123 VCPVCKTSFKSS 134 (140)
T ss_pred CCCccccccccc
Confidence 456665555543
No 140
>PF15269 zf-C2H2_7: Zinc-finger
Probab=26.48 E-value=62 Score=23.91 Aligned_cols=24 Identities=17% Similarity=0.293 Sum_probs=21.0
Q ss_pred ceecCccccccCChHHHHHHHHhc
Q 011334 63 RFICEICNKGFQRDQNLQLHRRGH 86 (488)
Q Consensus 63 py~C~~CgK~F~~~~~L~~H~r~H 86 (488)
.|+|-+|..+...+++|-.||+.-
T Consensus 20 ~ykcfqcpftc~~kshl~nhmky~ 43 (54)
T PF15269_consen 20 KYKCFQCPFTCNEKSHLFNHMKYS 43 (54)
T ss_pred cceeecCCcccchHHHHHHHHHHH
Confidence 488999999999999999999865
No 141
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=26.24 E-value=1e+02 Score=37.56 Aligned_cols=10 Identities=30% Similarity=0.650 Sum_probs=7.1
Q ss_pred ceecCccccc
Q 011334 63 RFICEICNKG 72 (488)
Q Consensus 63 py~C~~CgK~ 72 (488)
.++|+.||..
T Consensus 667 ~rkCPkCG~~ 676 (1337)
T PRK14714 667 RRRCPSCGTE 676 (1337)
T ss_pred EEECCCCCCc
Confidence 3778888863
No 142
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=26.06 E-value=16 Score=41.51 Aligned_cols=53 Identities=11% Similarity=0.409 Sum_probs=0.0
Q ss_pred ccccCccccchhhhhhhhcccCCccee-cC-CCCccCChHHHHHHHHHhcCCCccchhhhc
Q 011334 143 CEKCSKKYAVQSDWKAHSKTCGTREYK-CD-CGTLFSRKDSFITHRAFCDALAEESTRLAS 201 (488)
Q Consensus 143 C~~Cgk~F~~ks~L~~H~rt~geKpy~-C~-CgKsFs~ks~L~~H~r~H~~~~~~~C~~C~ 201 (488)
|..||-+|+-...|-.-+..+.-+.|. |+ |.+.|... .-+|+| ..+..|+.|+
T Consensus 126 CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP----~nRRfH--AQp~aCp~CG 180 (750)
T COG0068 126 CTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDP----LNRRFH--AQPIACPKCG 180 (750)
T ss_pred cCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCc----cccccc--cccccCcccC
No 143
>KOG4377 consensus Zn-finger protein [General function prediction only]
Probab=25.48 E-value=1.5e+02 Score=31.83 Aligned_cols=78 Identities=21% Similarity=0.423 Sum_probs=43.7
Q ss_pred cCceeecCCCcccCCCCCCccCChhhhhhhhccccCCc------------cccc--cccCccccchhhhhhhhcccCC--
Q 011334 102 KKKVYICPEKTCVHHEPSRALGDLTGIKKHFSRKHGEK------------KWKC--EKCSKKYAVQSDWKAHSKTCGT-- 165 (488)
Q Consensus 102 ~~kpy~C~~C~C~~~~c~k~F~~~s~L~~H~r~HtgeK------------py~C--~~Cgk~F~~ks~L~~H~rt~ge-- 165 (488)
++.-|.|-.-.| ...+..+..+.+|...|...+ -|-| ..|.| .-++...|..-|.+
T Consensus 268 ~rEhyhcl~e~C-----~ykr~~k~DvirH~~~hkkrdnsL~dgf~rfs~syhC~~~~C~k---sTsdV~~h~nFht~~~ 339 (480)
T KOG4377|consen 268 GREHYHCLNEYC-----FYKRGQKNDVIRHVEIHKKRDNSLIDGFHRFSNSYHCTGQICEK---STSDVLLHDNFHTDKR 339 (480)
T ss_pred cchhhcccCccc-----cccccchhhhHHHHHHHhhcccccccchhhcCccchhhhcccCc---ccccccccCccccccc
Confidence 455677765544 555555888888888775321 2567 45888 34455555433322
Q ss_pred ----c--ceecC-CCCccCChHHHHHHHHHh
Q 011334 166 ----R--EYKCD-CGTLFSRKDSFITHRAFC 189 (488)
Q Consensus 166 ----K--py~C~-CgKsFs~ks~L~~H~r~H 189 (488)
+ .|.|. ||-++..+ ...|+..|
T Consensus 340 n~GfrrthfhC~r~gCTdtfK--~~khk~yh 368 (480)
T KOG4377|consen 340 NNGFRRTHFHCQRIGCTDTFK--DSKHKPYH 368 (480)
T ss_pred cCceecceeEEeccCCccccc--cccccccc
Confidence 2 37787 66333333 34555444
No 144
>PRK04351 hypothetical protein; Provisional
Probab=25.22 E-value=39 Score=31.16 Aligned_cols=10 Identities=30% Similarity=1.374 Sum_probs=5.0
Q ss_pred ccccccCccc
Q 011334 141 WKCEKCSKKY 150 (488)
Q Consensus 141 y~C~~Cgk~F 150 (488)
|.|..|+..+
T Consensus 113 Y~C~~Cg~~~ 122 (149)
T PRK04351 113 YECQSCGQQY 122 (149)
T ss_pred EECCCCCCEe
Confidence 4555555443
No 145
>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=25.18 E-value=33 Score=29.06 Aligned_cols=12 Identities=50% Similarity=1.373 Sum_probs=7.7
Q ss_pred cccccccCcccc
Q 011334 140 KWKCEKCSKKYA 151 (488)
Q Consensus 140 py~C~~Cgk~F~ 151 (488)
.|+|..|++.|+
T Consensus 53 IW~C~~C~~~~A 64 (91)
T TIGR00280 53 IWTCRKCGAKFA 64 (91)
T ss_pred EEEcCCCCCEEe
Confidence 466666666664
No 146
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=25.16 E-value=41 Score=32.02 Aligned_cols=12 Identities=33% Similarity=0.503 Sum_probs=8.5
Q ss_pred cCceeecCCCcc
Q 011334 102 KKKVYICPEKTC 113 (488)
Q Consensus 102 ~~kpy~C~~C~C 113 (488)
.+..|.|++|-+
T Consensus 128 ~~~~~~CPiCl~ 139 (187)
T KOG0320|consen 128 KEGTYKCPICLD 139 (187)
T ss_pred cccccCCCceec
Confidence 455699999843
No 147
>PRK04023 DNA polymerase II large subunit; Validated
Probab=25.01 E-value=55 Score=38.87 Aligned_cols=9 Identities=22% Similarity=0.793 Sum_probs=4.3
Q ss_pred ccccccCcc
Q 011334 141 WKCEKCSKK 149 (488)
Q Consensus 141 y~C~~Cgk~ 149 (488)
+.|+.||..
T Consensus 639 frCP~CG~~ 647 (1121)
T PRK04023 639 RRCPFCGTH 647 (1121)
T ss_pred ccCCCCCCC
Confidence 445555543
No 148
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=24.91 E-value=28 Score=28.21 Aligned_cols=20 Identities=20% Similarity=0.532 Sum_probs=12.9
Q ss_pred CCcccccc--ccCccccchhhh
Q 011334 137 GEKKWKCE--KCSKKYAVQSDW 156 (488)
Q Consensus 137 geKpy~C~--~Cgk~F~~ks~L 156 (488)
.++-++|. .||.+|.....+
T Consensus 24 ~~~Y~qC~N~eCg~tF~t~es~ 45 (72)
T PRK09678 24 KERYHQCQNVNCSATFITYESV 45 (72)
T ss_pred heeeeecCCCCCCCEEEEEEEE
Confidence 35557776 788887665443
No 149
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=24.88 E-value=31 Score=31.76 Aligned_cols=16 Identities=31% Similarity=0.679 Sum_probs=9.2
Q ss_pred cccCCcc----ccccccCcc
Q 011334 134 RKHGEKK----WKCEKCSKK 149 (488)
Q Consensus 134 ~HtgeKp----y~C~~Cgk~ 149 (488)
.|+||++ |.|..||..
T Consensus 102 Y~sGE~~g~G~l~C~~Cg~~ 121 (146)
T PF07295_consen 102 YHSGEVVGPGTLVCENCGHE 121 (146)
T ss_pred eecCcEecCceEecccCCCE
Confidence 4455543 677777654
No 150
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=24.62 E-value=19 Score=40.88 Aligned_cols=24 Identities=25% Similarity=0.524 Sum_probs=22.2
Q ss_pred eecC-CCCccCChHHHHHHHHHhcC
Q 011334 168 YKCD-CGTLFSRKDSFITHRAFCDA 191 (488)
Q Consensus 168 y~C~-CgKsFs~ks~L~~H~r~H~~ 191 (488)
|.|. |+|.|-.-..+..||++|.-
T Consensus 793 FpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 793 FPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred eehHHHHHHHHHHhhhhHHHHHHHH
Confidence 9999 99999999999999999853
No 151
>PF09416 UPF1_Zn_bind: RNA helicase (UPF2 interacting domain); InterPro: IPR018999 UPF1 (or regulator of nonsense transcripts 1 homologue) is an essential RNA helicase that detects mRNAs containing premature stop codons and triggers their degradation. This domain contains 3 zinc binding motifs and forms interactions with another protein (UPF2) that is also involved nonsense-mediated mRNA decay (NMD) []. ; GO: 0003677 DNA binding, 0004386 helicase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay, 0005737 cytoplasm; PDB: 2IYK_B 2WJY_A 2WJV_A 2XZL_A.
Probab=24.33 E-value=41 Score=31.23 Aligned_cols=11 Identities=36% Similarity=0.866 Sum_probs=6.4
Q ss_pred cccccccCccc
Q 011334 140 KWKCEKCSKKY 150 (488)
Q Consensus 140 py~C~~Cgk~F 150 (488)
-.+|..|+|.|
T Consensus 14 vv~C~~c~kWF 24 (152)
T PF09416_consen 14 VVKCNTCNKWF 24 (152)
T ss_dssp EEEETTTTEEE
T ss_pred EeEcCCCCcEe
Confidence 35566666655
No 152
>PRK14873 primosome assembly protein PriA; Provisional
Probab=23.89 E-value=48 Score=37.89 Aligned_cols=26 Identities=19% Similarity=0.690 Sum_probs=16.4
Q ss_pred ccCCccccccccCccccchhhhhhhhcccCCcceecC-CCCc
Q 011334 135 KHGEKKWKCEKCSKKYAVQSDWKAHSKTCGTREYKCD-CGTL 175 (488)
Q Consensus 135 HtgeKpy~C~~Cgk~F~~ks~L~~H~rt~geKpy~C~-CgKs 175 (488)
|...+...|..||.. ..+..|. ||..
T Consensus 405 h~~~~~l~Ch~CG~~---------------~~p~~Cp~Cgs~ 431 (665)
T PRK14873 405 PSAGGTPRCRWCGRA---------------APDWRCPRCGSD 431 (665)
T ss_pred ecCCCeeECCCCcCC---------------CcCccCCCCcCC
Confidence 334456778888743 1366888 8864
No 153
>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=23.53 E-value=36 Score=23.53 Aligned_cols=9 Identities=22% Similarity=0.645 Sum_probs=5.3
Q ss_pred cccccccCc
Q 011334 140 KWKCEKCSK 148 (488)
Q Consensus 140 py~C~~Cgk 148 (488)
.-.|+.|+.
T Consensus 26 ~~~CP~Cg~ 34 (41)
T smart00834 26 LATCPECGG 34 (41)
T ss_pred CCCCCCCCC
Confidence 445666665
No 154
>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=23.37 E-value=16 Score=25.86 Aligned_cols=9 Identities=44% Similarity=1.242 Sum_probs=4.1
Q ss_pred eecC-CCCcc
Q 011334 168 YKCD-CGTLF 176 (488)
Q Consensus 168 y~C~-CgKsF 176 (488)
|.|. |++.|
T Consensus 29 y~C~~C~~~w 38 (39)
T PF01096_consen 29 YVCCNCGHRW 38 (39)
T ss_dssp EEESSSTEEE
T ss_pred EEeCCCCCee
Confidence 4444 54443
No 155
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=22.58 E-value=71 Score=20.52 Aligned_cols=20 Identities=15% Similarity=0.453 Sum_probs=15.7
Q ss_pred eecCccccccCChHHHHHHHH
Q 011334 64 FICEICNKGFQRDQNLQLHRR 84 (488)
Q Consensus 64 y~C~~CgK~F~~~~~L~~H~r 84 (488)
..|++|++.+ ....+..|..
T Consensus 2 v~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 2 VQCPVCFREV-PENLINSHLD 21 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHHH
Confidence 4699999998 5567778865
No 156
>PF04641 Rtf2: Rtf2 RING-finger
Probab=22.15 E-value=1.1e+02 Score=30.56 Aligned_cols=52 Identities=17% Similarity=0.381 Sum_probs=33.0
Q ss_pred CCccccccccCccccchhhhhhhhcccCCcceecC--CCCccCChHHHHHHHHHhcCCCccchhhhchhcccc
Q 011334 137 GEKKWKCEKCSKKYAVQSDWKAHSKTCGTREYKCD--CGTLFSRKDSFITHRAFCDALAEESTRLASSVVAAA 207 (488)
Q Consensus 137 geKpy~C~~Cgk~F~~ks~L~~H~rt~geKpy~C~--CgKsFs~ks~L~~H~r~H~~~~~~~C~~C~~sf~~~ 207 (488)
.+-+|.|+++++.|. +..+|.+- ||-.|+.+.- .. +. ....|.+|+..|...
T Consensus 110 ~~~~~~CPvt~~~~~------------~~~~fv~l~~cG~V~s~~al-ke-~k-----~~~~Cp~c~~~f~~~ 163 (260)
T PF04641_consen 110 SEGRFICPVTGKEFN------------GKHKFVYLRPCGCVFSEKAL-KE-LK-----KSKKCPVCGKPFTEE 163 (260)
T ss_pred CCceeECCCCCcccC------------CceeEEEEcCCCCEeeHHHH-Hh-hc-----ccccccccCCccccC
Confidence 356799999988773 23356664 8888875432 11 11 244699999888743
No 157
>PF08238 Sel1: Sel1 repeat; InterPro: IPR006597 Sel1-like repeats are tetratricopeptide repeat sequences originally identified in a Caenorhabditis elegans receptor molecule which is a key negative regulator of the Notch pathway []. Mammalian homologues have since been identified although these mainly pancreatic proteins have yet to have a function assigned.; PDB: 2XM6_A 3RJV_A 1OUV_A 1KLX_A.
Probab=21.99 E-value=67 Score=21.31 Aligned_cols=13 Identities=38% Similarity=0.417 Sum_probs=11.1
Q ss_pred cHHHHHHHHHHcC
Q 011334 323 SATALLQKAAQMG 335 (488)
Q Consensus 323 sat~ll~k~~q~g 335 (488)
=|..+++|||++|
T Consensus 26 ~A~~~~~~Aa~~g 38 (39)
T PF08238_consen 26 KAFKWYEKAAEQG 38 (39)
T ss_dssp HHHHHHHHHHHTT
T ss_pred chHHHHHHHHHcc
Confidence 3678999999988
No 158
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=21.98 E-value=62 Score=25.26 Aligned_cols=9 Identities=44% Similarity=1.272 Sum_probs=5.6
Q ss_pred cceecC-CCC
Q 011334 166 REYKCD-CGT 174 (488)
Q Consensus 166 Kpy~C~-CgK 174 (488)
.+|.|. ||.
T Consensus 47 ~~Y~CP~CGF 56 (59)
T PRK14890 47 NPYTCPKCGF 56 (59)
T ss_pred CceECCCCCC
Confidence 467776 763
No 159
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=21.97 E-value=51 Score=23.51 Aligned_cols=11 Identities=18% Similarity=0.715 Sum_probs=6.2
Q ss_pred CccccccccCc
Q 011334 138 EKKWKCEKCSK 148 (488)
Q Consensus 138 eKpy~C~~Cgk 148 (488)
..+..|+.|+.
T Consensus 24 ~~~~~CP~Cg~ 34 (42)
T PF09723_consen 24 DDPVPCPECGS 34 (42)
T ss_pred CCCCcCCCCCC
Confidence 34456666665
No 160
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=21.94 E-value=38 Score=28.67 Aligned_cols=7 Identities=43% Similarity=1.165 Sum_probs=2.9
Q ss_pred ccccccc
Q 011334 140 KWKCEKC 146 (488)
Q Consensus 140 py~C~~C 146 (488)
|-+|+.|
T Consensus 76 pSRCP~C 82 (97)
T COG3357 76 PSRCPKC 82 (97)
T ss_pred cccCCcc
Confidence 3344444
No 161
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=21.66 E-value=42 Score=28.41 Aligned_cols=13 Identities=46% Similarity=1.211 Sum_probs=8.2
Q ss_pred cccccccCccccc
Q 011334 140 KWKCEKCSKKYAV 152 (488)
Q Consensus 140 py~C~~Cgk~F~~ 152 (488)
.|.|..|++.|+-
T Consensus 54 IW~C~~C~~~~AG 66 (90)
T PRK03976 54 IWECRKCGAKFAG 66 (90)
T ss_pred EEEcCCCCCEEeC
Confidence 4667777666653
No 162
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=21.66 E-value=44 Score=23.63 Aligned_cols=22 Identities=27% Similarity=0.690 Sum_probs=11.8
Q ss_pred hhhhhccccCCccccccccCcc
Q 011334 128 IKKHFSRKHGEKKWKCEKCSKK 149 (488)
Q Consensus 128 L~~H~r~HtgeKpy~C~~Cgk~ 149 (488)
|.-+.....+.+.|.|..|+..
T Consensus 12 lNp~~~~~~~~~~w~C~~C~~~ 33 (40)
T PF04810_consen 12 LNPFCQFDDGGKTWICNFCGTK 33 (40)
T ss_dssp S-TTSEEETTTTEEEETTT--E
T ss_pred ECCcceEcCCCCEEECcCCCCc
Confidence 3344445555667888888764
No 163
>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=21.57 E-value=67 Score=23.24 Aligned_cols=10 Identities=30% Similarity=1.075 Sum_probs=6.3
Q ss_pred CcceecC-CCC
Q 011334 165 TREYKCD-CGT 174 (488)
Q Consensus 165 eKpy~C~-CgK 174 (488)
...|+|. |++
T Consensus 35 ~~~~~C~~C~~ 45 (46)
T PF12760_consen 35 RGRYRCKACRK 45 (46)
T ss_pred CCeEECCCCCC
Confidence 4567776 664
No 164
>PRK14873 primosome assembly protein PriA; Provisional
Probab=21.04 E-value=34 Score=39.11 Aligned_cols=11 Identities=27% Similarity=1.301 Sum_probs=9.3
Q ss_pred ccccccccCcc
Q 011334 139 KKWKCEKCSKK 149 (488)
Q Consensus 139 Kpy~C~~Cgk~ 149 (488)
.|+.|+.|+..
T Consensus 421 ~p~~Cp~Cgs~ 431 (665)
T PRK14873 421 PDWRCPRCGSD 431 (665)
T ss_pred cCccCCCCcCC
Confidence 58999999875
No 165
>PF15269 zf-C2H2_7: Zinc-finger
Probab=20.84 E-value=73 Score=23.55 Aligned_cols=21 Identities=29% Similarity=0.649 Sum_probs=14.2
Q ss_pred eecC-CCCccCChHHHHHHHHH
Q 011334 168 YKCD-CGTLFSRKDSFITHRAF 188 (488)
Q Consensus 168 y~C~-CgKsFs~ks~L~~H~r~ 188 (488)
|+|- |..+...+++|-.||+.
T Consensus 21 ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred ceeecCCcccchHHHHHHHHHH
Confidence 5666 66666677777777764
No 166
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=20.68 E-value=2.8e+02 Score=28.87 Aligned_cols=44 Identities=11% Similarity=0.276 Sum_probs=29.6
Q ss_pred cccccCccccchhhhhhhhcccCCcceecC----CCCccCChHHHHHHHHHhcC
Q 011334 142 KCEKCSKKYAVQSDWKAHSKTCGTREYKCD----CGTLFSRKDSFITHRAFCDA 191 (488)
Q Consensus 142 ~C~~Cgk~F~~ks~L~~H~rt~geKpy~C~----CgKsFs~ks~L~~H~r~H~~ 191 (488)
.|..|.....+.. ...-+-.|.|. |.++|..+..|..|..--|.
T Consensus 125 ~Cp~C~d~VqrIe------q~~~g~iFmC~~~~GC~RTyLsqrDlqAHInhrH~ 172 (389)
T KOG2932|consen 125 ICPLCDDRVQRIE------QIMMGGIFMCAAPHGCLRTYLSQRDLQAHINHRHG 172 (389)
T ss_pred cCcCcccHHHHHH------HhcccceEEeecchhHHHHHhhHHHHHHHhhhhhc
Confidence 4777755432211 11344679995 99999999999999875444
No 167
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=20.42 E-value=52 Score=34.42 Aligned_cols=68 Identities=9% Similarity=0.060 Sum_probs=43.2
Q ss_pred cCceeecCCCcccCCCCCCccCChhhhhhhhcccc----------------------CCccccccccCccccchhhhhhh
Q 011334 102 KKKVYICPEKTCVHHEPSRALGDLTGIKKHFSRKH----------------------GEKKWKCEKCSKKYAVQSDWKAH 159 (488)
Q Consensus 102 ~~kpy~C~~C~C~~~~c~k~F~~~s~L~~H~r~Ht----------------------geKpy~C~~Cgk~F~~ks~L~~H 159 (488)
..+.|+|-.| ...-.|...|......-.|---|- .+.-|.|++|++.=.+...|..|
T Consensus 20 t~rrYkCL~C-~DyDlC~sCyen~~tt~~H~~dHPmqcil~~~dfeL~f~Ge~i~~y~~qSftCPyC~~~Gfte~~f~~H 98 (381)
T KOG1280|consen 20 TFRRYKCLRC-SDYDLCFSCYENGATTPIHDEDHPMQCILSRVDFELYFGGEPISHYDPQSFTCPYCGIMGFTERQFGTH 98 (381)
T ss_pred eeeeeEeeee-cchhHHHHHhhcCCCCcccCCCCceeEEeeccceeeEecCccccccccccccCCcccccccchhHHHHH
Confidence 4678999888 222233344444333333432221 23469999999999999999999
Q ss_pred hcc-cCCcceec
Q 011334 160 SKT-CGTREYKC 170 (488)
Q Consensus 160 ~rt-~geKpy~C 170 (488)
... |-+-++.|
T Consensus 99 v~s~Hpda~~~~ 110 (381)
T KOG1280|consen 99 VLSQHPEASTSV 110 (381)
T ss_pred hhhcCcccCcce
Confidence 877 77655544
Done!