Query 008017
Match_columns 581
No_of_seqs 421 out of 3231
Neff 7.0
Searched_HMMs 46136
Date Thu Mar 28 18:23:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008017.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008017hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462 C2H2-type Zn-finger pr 99.9 1.8E-26 3.9E-31 227.3 10.0 137 61-231 127-265 (279)
2 KOG2462 C2H2-type Zn-finger pr 99.8 2.2E-21 4.7E-26 191.5 5.0 110 59-205 156-265 (279)
3 KOG1074 Transcriptional repres 99.7 3.1E-18 6.8E-23 188.5 0.5 79 148-233 605-692 (958)
4 KOG3576 Ovo and related transc 99.7 2.1E-17 4.5E-22 155.7 3.3 113 105-237 115-240 (267)
5 KOG1074 Transcriptional repres 99.6 1E-16 2.2E-21 176.7 6.3 58 184-241 880-939 (958)
6 KOG3608 Zn finger proteins [Ge 99.6 1.5E-16 3.3E-21 160.6 3.7 163 68-238 183-381 (467)
7 KOG3576 Ovo and related transc 99.6 3.1E-16 6.7E-21 147.8 2.9 114 59-207 112-237 (267)
8 KOG3608 Zn finger proteins [Ge 99.5 2.4E-14 5.2E-19 144.8 4.8 100 102-220 287-397 (467)
9 KOG3623 Homeobox transcription 99.5 1.1E-14 2.5E-19 158.1 2.4 123 63-205 209-331 (1007)
10 KOG3623 Homeobox transcription 99.4 1E-13 2.3E-18 150.7 3.3 81 105-205 892-972 (1007)
11 PLN03086 PRLI-interacting fact 99.2 4.8E-11 1E-15 131.4 9.4 144 64-234 407-565 (567)
12 PHA00733 hypothetical protein 98.8 2.9E-09 6.2E-14 96.9 4.5 84 145-236 37-126 (128)
13 PLN03086 PRLI-interacting fact 98.8 8.6E-09 1.9E-13 113.8 7.6 103 61-205 450-562 (567)
14 PHA00733 hypothetical protein 98.7 6.3E-09 1.4E-13 94.7 3.9 84 105-207 38-124 (128)
15 KOG3993 Transcription factor ( 98.7 1.3E-09 2.8E-14 113.3 -0.7 150 64-235 267-484 (500)
16 PHA02768 hypothetical protein; 98.3 2.6E-07 5.7E-12 70.7 2.6 44 107-172 5-48 (55)
17 KOG3993 Transcription factor ( 98.3 5.1E-07 1.1E-11 94.3 4.1 147 52-205 283-480 (500)
18 PHA02768 hypothetical protein; 98.3 2.5E-07 5.4E-12 70.8 1.0 41 184-225 6-47 (55)
19 PF13465 zf-H2C2_2: Zinc-finge 98.1 8E-07 1.7E-11 58.0 0.6 26 170-195 1-26 (26)
20 PF13465 zf-H2C2_2: Zinc-finge 97.7 2E-05 4.3E-10 51.4 2.0 26 79-119 1-26 (26)
21 COG5189 SFP1 Putative transcri 97.7 1.2E-05 2.5E-10 81.5 0.7 28 145-177 346-373 (423)
22 PHA00732 hypothetical protein 97.6 6E-05 1.3E-09 62.8 3.5 49 107-180 1-49 (79)
23 PHA00616 hypothetical protein 97.6 2.4E-05 5.1E-10 57.2 0.8 34 107-153 1-34 (44)
24 PHA00616 hypothetical protein 97.6 3.1E-05 6.7E-10 56.6 1.4 27 162-188 8-34 (44)
25 PHA00732 hypothetical protein 97.6 6.1E-05 1.3E-09 62.7 3.3 48 64-131 1-48 (79)
26 COG5189 SFP1 Putative transcri 97.5 2.5E-05 5.3E-10 79.2 0.6 51 180-230 346-419 (423)
27 PF05605 zf-Di19: Drought indu 97.4 0.00022 4.7E-09 55.0 4.2 52 64-131 2-53 (54)
28 PF00096 zf-C2H2: Zinc finger, 97.2 0.00016 3.6E-09 45.3 1.3 23 108-130 1-23 (23)
29 PF05605 zf-Di19: Drought indu 97.1 0.00037 8.1E-09 53.7 3.2 52 107-179 2-53 (54)
30 PF00096 zf-C2H2: Zinc finger, 96.8 0.00058 1.3E-08 42.8 1.5 23 65-87 1-23 (23)
31 PF12756 zf-C2H2_2: C2H2 type 96.8 0.00074 1.6E-08 57.7 2.3 65 66-130 1-73 (100)
32 KOG2231 Predicted E3 ubiquitin 96.7 0.0012 2.5E-08 74.5 4.1 67 149-230 183-260 (669)
33 COG5048 FOG: Zn-finger [Genera 96.7 0.00052 1.1E-08 73.3 1.3 148 63-228 288-464 (467)
34 PF13894 zf-C2H2_4: C2H2-type 96.7 0.00095 2.1E-08 41.7 1.8 24 108-131 1-24 (24)
35 PF13912 zf-C2H2_6: C2H2-type 96.5 0.0013 2.8E-08 42.9 1.6 25 107-131 1-25 (27)
36 PF12756 zf-C2H2_2: C2H2 type 96.3 0.0022 4.9E-08 54.7 2.4 73 150-233 1-74 (100)
37 PF13894 zf-C2H2_4: C2H2-type 96.3 0.0027 5.8E-08 39.6 1.8 24 65-88 1-24 (24)
38 KOG2231 Predicted E3 ubiquitin 96.1 0.0077 1.7E-07 68.1 5.8 12 64-75 99-110 (669)
39 PF13912 zf-C2H2_6: C2H2-type 95.7 0.006 1.3E-07 39.7 1.7 26 64-89 1-26 (27)
40 smart00355 ZnF_C2H2 zinc finge 95.7 0.0077 1.7E-07 38.0 2.0 24 108-131 1-24 (26)
41 PF09237 GAGA: GAGA factor; I 95.3 0.014 3E-07 43.9 2.5 39 172-210 12-52 (54)
42 KOG1146 Homeobox protein [Gene 95.2 0.011 2.3E-07 70.6 2.7 146 66-232 438-641 (1406)
43 COG5236 Uncharacterized conser 94.9 0.023 5E-07 58.7 3.6 112 107-237 151-279 (493)
44 smart00355 ZnF_C2H2 zinc finge 94.7 0.023 5E-07 35.7 2.1 24 65-88 1-24 (26)
45 PF12874 zf-met: Zinc-finger o 94.7 0.016 3.5E-07 36.9 1.2 23 108-130 1-23 (25)
46 PRK04860 hypothetical protein; 94.4 0.015 3.2E-07 55.1 0.7 35 183-221 119-155 (160)
47 COG5048 FOG: Zn-finger [Genera 94.3 0.015 3.2E-07 62.1 0.7 107 106-232 288-411 (467)
48 KOG2893 Zn finger protein [Gen 94.2 0.016 3.5E-07 57.0 0.5 46 66-130 12-58 (341)
49 PF09237 GAGA: GAGA factor; I 93.9 0.05 1.1E-06 41.0 2.5 28 104-131 21-48 (54)
50 PF12874 zf-met: Zinc-finger o 93.4 0.043 9.3E-07 34.9 1.4 23 65-87 1-23 (25)
51 KOG2785 C2H2-type Zn-finger pr 93.3 0.24 5.1E-06 52.4 7.3 160 63-231 2-242 (390)
52 PF12171 zf-C2H2_jaz: Zinc-fin 93.2 0.034 7.3E-07 36.3 0.6 23 108-130 2-24 (27)
53 PRK04860 hypothetical protein; 93.1 0.051 1.1E-06 51.5 1.9 39 106-168 118-156 (160)
54 PF13909 zf-H2C2_5: C2H2-type 91.7 0.1 2.2E-06 32.9 1.4 23 65-88 1-23 (24)
55 KOG1146 Homeobox protein [Gene 91.0 0.14 3E-06 61.6 2.6 97 58-205 1254-1350(1406)
56 PF12171 zf-C2H2_jaz: Zinc-fin 90.8 0.11 2.3E-06 33.9 0.8 23 64-86 1-23 (27)
57 COG5236 Uncharacterized conser 90.0 0.28 6E-06 51.0 3.4 132 64-233 151-305 (493)
58 PF13909 zf-H2C2_5: C2H2-type 89.8 0.26 5.7E-06 31.0 2.0 22 211-233 1-23 (24)
59 KOG4173 Alpha-SNAP protein [In 89.5 0.11 2.5E-06 50.2 0.3 81 145-233 76-170 (253)
60 smart00451 ZnF_U1 U1-like zinc 87.3 0.42 9.1E-06 32.8 1.9 24 107-130 3-26 (35)
61 KOG2482 Predicted C2H2-type Zn 86.5 0.82 1.8E-05 47.6 4.3 160 63-232 143-357 (423)
62 PF13913 zf-C2HC_2: zinc-finge 84.8 0.74 1.6E-05 29.6 1.9 19 185-204 4-22 (25)
63 KOG2482 Predicted C2H2-type Zn 83.7 1 2.2E-05 47.0 3.3 69 63-131 194-303 (423)
64 PF13913 zf-C2HC_2: zinc-finge 83.0 1.1 2.5E-05 28.8 2.2 22 64-86 2-23 (25)
65 smart00451 ZnF_U1 U1-like zinc 82.9 0.87 1.9E-05 31.2 1.8 23 183-205 3-25 (35)
66 KOG2785 C2H2-type Zn-finger pr 81.8 1.7 3.7E-05 46.1 4.3 138 60-205 64-242 (390)
67 KOG2893 Zn finger protein [Gen 79.6 0.44 9.6E-06 47.2 -0.8 41 151-202 13-53 (341)
68 KOG1883 Cofactor required for 77.8 1.6 3.4E-05 52.0 2.7 21 272-292 1430-1450(1517)
69 KOG4173 Alpha-SNAP protein [In 74.7 1.1 2.4E-05 43.6 0.4 79 104-205 76-168 (253)
70 PF09538 FYDLN_acid: Protein o 73.7 2.3 5.1E-05 37.6 2.1 34 61-120 6-39 (108)
71 KOG2186 Cell growth-regulating 72.3 2.7 5.9E-05 42.3 2.4 45 184-230 4-49 (276)
72 TIGR00622 ssl1 transcription f 69.1 6.9 0.00015 34.8 4.0 48 185-233 57-105 (112)
73 COG4049 Uncharacterized protei 68.6 2.3 4.9E-05 32.8 0.8 33 57-89 10-42 (65)
74 PF09986 DUF2225: Uncharacteri 68.4 1.4 3E-05 43.9 -0.6 52 63-120 4-61 (214)
75 COG4049 Uncharacterized protei 67.9 2.2 4.9E-05 32.8 0.6 27 179-205 13-39 (65)
76 KOG4124 Putative transcription 66.1 1.7 3.6E-05 45.5 -0.5 27 146-177 347-373 (442)
77 cd00350 rubredoxin_like Rubred 65.0 4.2 9E-05 27.9 1.5 10 182-191 16-25 (33)
78 PF12013 DUF3505: Protein of u 64.9 9.4 0.0002 33.5 4.1 23 211-233 81-108 (109)
79 KOG4377 Zn-finger protein [Gen 64.8 4.3 9.4E-05 43.5 2.2 147 64-235 271-429 (480)
80 KOG1280 Uncharacterized conser 64.0 2.9 6.3E-05 43.8 0.8 31 181-211 77-108 (381)
81 COG1997 RPL43A Ribosomal prote 63.5 3.8 8.2E-05 34.6 1.2 34 146-196 33-66 (89)
82 KOG2071 mRNA cleavage and poly 63.0 5.8 0.00012 44.6 2.9 28 104-131 415-442 (579)
83 PF04959 ARS2: Arsenite-resist 61.6 2.9 6.3E-05 41.5 0.3 30 180-209 74-104 (214)
84 PF02892 zf-BED: BED zinc fing 60.2 6.3 0.00014 28.6 1.8 25 105-129 14-42 (45)
85 KOG2186 Cell growth-regulating 59.1 3.8 8.2E-05 41.2 0.6 48 148-205 3-50 (276)
86 PRK00464 nrdR transcriptional 58.7 2.6 5.7E-05 39.7 -0.6 17 183-199 28-44 (154)
87 PF02892 zf-BED: BED zinc fing 57.8 6.7 0.00015 28.4 1.6 25 180-204 13-41 (45)
88 TIGR02300 FYDLN_acid conserved 56.3 7.6 0.00016 35.2 2.0 37 62-124 7-43 (129)
89 PF09986 DUF2225: Uncharacteri 56.1 5.1 0.00011 39.8 0.9 44 146-196 3-61 (214)
90 COG1198 PriA Primosomal protei 53.1 9.3 0.0002 44.7 2.5 13 180-192 472-484 (730)
91 PRK00464 nrdR transcriptional 52.8 6.6 0.00014 37.0 1.1 16 209-224 27-43 (154)
92 smart00614 ZnF_BED BED zinc fi 52.2 9.4 0.0002 28.6 1.6 25 106-130 17-47 (50)
93 KOG4167 Predicted DNA-binding 52.1 5.7 0.00012 45.5 0.6 29 62-90 790-818 (907)
94 KOG4167 Predicted DNA-binding 52.0 5.8 0.00013 45.5 0.6 27 105-131 790-816 (907)
95 PF09538 FYDLN_acid: Protein o 51.4 10 0.00022 33.5 2.0 15 182-196 25-39 (108)
96 KOG4124 Putative transcription 50.5 5.6 0.00012 41.8 0.2 25 105-129 347-373 (442)
97 COG1592 Rubrerythrin [Energy p 50.4 9.4 0.0002 36.4 1.7 26 146-191 132-157 (166)
98 KOG2593 Transcription initiati 48.3 13 0.00028 40.4 2.5 36 180-217 125-161 (436)
99 PF09416 UPF1_Zn_bind: RNA hel 48.2 14 0.0003 34.7 2.4 39 180-218 11-69 (152)
100 PF14353 CpXC: CpXC protein 44.8 1.8 3.9E-05 39.2 -4.0 60 65-130 2-61 (128)
101 PRK04023 DNA polymerase II lar 43.1 23 0.0005 42.5 3.7 12 105-116 624-635 (1121)
102 KOG1924 RhoA GTPase effector D 42.3 81 0.0018 37.0 7.6 14 539-554 707-720 (1102)
103 PF13717 zinc_ribbon_4: zinc-r 41.4 19 0.00041 25.2 1.7 13 185-197 4-16 (36)
104 KOG2932 E3 ubiquitin ligase in 40.7 2.4E+02 0.0053 29.6 10.0 28 206-233 140-171 (389)
105 PF05443 ROS_MUCR: ROS/MUCR tr 40.7 19 0.00041 33.1 2.0 25 104-131 69-93 (132)
106 PF12013 DUF3505: Protein of u 40.0 37 0.00079 29.7 3.7 33 57-89 73-109 (109)
107 PF04216 FdhE: Protein involve 40.0 3.7 7.9E-05 42.7 -3.1 34 183-216 211-245 (290)
108 cd00729 rubredoxin_SM Rubredox 39.7 19 0.00041 24.9 1.4 10 182-191 17-26 (34)
109 PF15135 UPF0515: Uncharacteri 38.0 28 0.0006 35.2 2.9 77 119-222 91-168 (278)
110 COG2888 Predicted Zn-ribbon RN 37.4 23 0.00049 27.9 1.7 9 182-190 49-57 (61)
111 PHA00626 hypothetical protein 37.0 21 0.00045 27.7 1.4 14 182-195 22-35 (59)
112 smart00531 TFIIE Transcription 36.6 32 0.0007 31.9 3.0 12 184-195 100-111 (147)
113 TIGR02300 FYDLN_acid conserved 35.0 27 0.00058 31.8 2.0 15 182-196 25-39 (129)
114 KOG2593 Transcription initiati 34.6 20 0.00044 39.0 1.4 40 59-116 123-162 (436)
115 PRK03564 formate dehydrogenase 34.4 19 0.0004 37.9 1.1 12 145-156 209-220 (309)
116 KOG0608 Warts/lats-like serine 34.1 58 0.0013 37.6 4.9 37 280-316 423-459 (1034)
117 PRK03564 formate dehydrogenase 33.8 44 0.00096 35.1 3.7 12 61-72 184-195 (309)
118 TIGR02605 CxxC_CxxC_SSSS putat 33.8 20 0.00043 26.9 0.9 30 148-191 5-34 (52)
119 COG1996 RPC10 DNA-directed RNA 32.8 22 0.00048 26.9 1.0 9 183-191 24-32 (49)
120 COG1592 Rubrerythrin [Energy p 32.4 27 0.00059 33.3 1.8 23 107-155 134-156 (166)
121 smart00834 CxxC_CXXC_SSSS Puta 32.3 22 0.00047 25.0 0.9 31 148-192 5-35 (41)
122 PRK14873 primosome assembly pr 32.1 28 0.0006 40.6 2.1 11 182-192 421-431 (665)
123 smart00734 ZnF_Rad18 Rad18-lik 31.7 36 0.00077 22.1 1.7 20 65-85 2-21 (26)
124 PRK09678 DNA-binding transcrip 31.5 17 0.00036 29.8 0.1 38 184-222 2-42 (72)
125 cd00730 rubredoxin Rubredoxin; 31.1 32 0.00069 26.1 1.6 15 64-78 1-15 (50)
126 COG5188 PRP9 Splicing factor 3 30.8 59 0.0013 34.5 4.0 27 60-86 234-260 (470)
127 COG4957 Predicted transcriptio 30.5 35 0.00076 31.3 2.0 22 107-131 76-97 (148)
128 PRK09678 DNA-binding transcrip 29.4 25 0.00054 28.8 0.8 21 179-199 23-45 (72)
129 TIGR00373 conserved hypothetic 29.1 31 0.00068 32.5 1.6 16 184-199 110-125 (158)
130 PRK04023 DNA polymerase II lar 28.7 50 0.0011 39.8 3.4 7 148-154 626-632 (1121)
131 COG1571 Predicted DNA-binding 28.6 32 0.00068 37.6 1.7 30 184-223 351-381 (421)
132 PF13719 zinc_ribbon_5: zinc-r 28.6 36 0.00079 23.9 1.5 11 183-193 25-35 (37)
133 PRK06266 transcription initiat 28.4 29 0.00062 33.5 1.2 29 183-219 117-146 (178)
134 TIGR02098 MJ0042_CXXC MJ0042 f 28.3 33 0.00072 23.9 1.2 10 184-193 26-35 (38)
135 KOG3408 U1-like Zn-finger-cont 28.1 33 0.00071 30.9 1.4 29 58-86 51-79 (129)
136 TIGR01562 FdhE formate dehydro 27.9 28 0.0006 36.6 1.1 12 145-156 207-218 (305)
137 PRK06266 transcription initiat 27.4 26 0.00057 33.8 0.8 35 145-195 114-148 (178)
138 PF15269 zf-C2H2_7: Zinc-finge 27.2 54 0.0012 24.3 2.1 25 64-88 20-44 (54)
139 KOG1701 Focal adhesion adaptor 27.1 18 0.00038 39.3 -0.5 37 184-220 395-438 (468)
140 TIGR00373 conserved hypothetic 27.1 28 0.00061 32.9 0.9 34 145-194 106-139 (158)
141 smart00531 TFIIE Transcription 26.5 30 0.00066 32.1 1.0 39 145-194 96-134 (147)
142 KOG0696 Serine/threonine prote 25.9 28 0.0006 38.0 0.7 58 105-191 71-129 (683)
143 PF04959 ARS2: Arsenite-resist 25.9 49 0.0011 33.0 2.3 30 207-236 74-104 (214)
144 COG4888 Uncharacterized Zn rib 25.9 14 0.00029 32.2 -1.3 41 61-120 19-59 (104)
145 TIGR00622 ssl1 transcription f 25.3 1.2E+02 0.0027 27.0 4.5 87 105-205 13-103 (112)
146 KOG2807 RNA polymerase II tran 25.2 82 0.0018 33.2 3.8 24 210-233 345-369 (378)
147 PF12760 Zn_Tnp_IS1595: Transp 25.1 80 0.0017 23.1 2.8 11 181-191 35-45 (46)
148 KOG2807 RNA polymerase II tran 24.8 92 0.002 32.8 4.1 68 64-131 290-369 (378)
149 KOG2932 E3 ubiquitin ligase in 24.8 37 0.00081 35.4 1.3 27 179-205 140-169 (389)
150 COG3364 Zn-ribbon containing p 24.6 44 0.00095 29.2 1.5 15 107-121 2-16 (112)
151 COG0068 HypF Hydrogenase matur 24.4 17 0.00038 41.9 -1.3 57 109-191 125-181 (750)
152 PF06524 NOA36: NOA36 protein; 24.3 47 0.001 33.8 1.8 25 208-232 207-232 (314)
153 PF05129 Elf1: Transcription e 24.3 17 0.00038 30.4 -1.0 49 53-120 11-59 (81)
154 KOG3214 Uncharacterized Zn rib 24.1 25 0.00054 30.5 -0.1 51 53-122 12-62 (109)
155 PF05443 ROS_MUCR: ROS/MUCR tr 24.0 55 0.0012 30.1 2.2 29 61-92 69-97 (132)
156 COG4530 Uncharacterized protei 23.8 55 0.0012 29.0 1.9 13 181-193 24-36 (129)
157 PRK00398 rpoP DNA-directed RNA 23.6 39 0.00085 24.7 0.9 11 183-193 21-31 (46)
158 PRK14714 DNA polymerase II lar 23.4 66 0.0014 39.8 3.2 10 107-116 667-676 (1337)
159 PF07800 DUF1644: Protein of u 23.1 2.1E+02 0.0046 27.1 5.8 40 89-131 11-50 (162)
160 PF09723 Zn-ribbon_8: Zinc rib 23.1 40 0.00087 24.4 0.9 30 148-191 5-34 (42)
161 PF04810 zf-Sec23_Sec24: Sec23 23.1 43 0.00093 24.0 1.0 23 170-192 11-33 (40)
162 PRK14890 putative Zn-ribbon RN 23.0 58 0.0013 25.6 1.7 8 147-154 24-31 (59)
163 KOG4217 Nuclear receptors of t 22.9 1.4E+02 0.0031 33.0 5.2 9 341-349 147-155 (605)
164 COG1198 PriA Primosomal protei 22.7 55 0.0012 38.5 2.3 29 176-218 455-484 (730)
165 PRK05654 acetyl-CoA carboxylas 22.7 50 0.0011 34.5 1.8 41 57-121 20-60 (292)
166 TIGR00515 accD acetyl-CoA carb 22.3 60 0.0013 33.8 2.3 41 57-121 19-59 (285)
167 PF09845 DUF2072: Zn-ribbon co 22.0 49 0.0011 30.3 1.4 15 107-121 1-15 (131)
168 COG3091 SprT Zn-dependent meta 21.9 45 0.00098 31.3 1.1 32 182-218 116-149 (156)
169 COG3677 Transposase and inacti 21.9 47 0.001 30.3 1.2 17 180-196 50-66 (129)
170 smart00659 RPOLCX RNA polymera 20.9 61 0.0013 23.9 1.4 11 182-192 18-28 (44)
171 PF15135 UPF0515: Uncharacteri 20.7 86 0.0019 31.8 2.9 60 104-196 109-168 (278)
172 PRK14873 primosome assembly pr 20.4 58 0.0013 38.0 1.9 27 177-218 404-431 (665)
No 1
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.93 E-value=1.8e-26 Score=227.29 Aligned_cols=137 Identities=22% Similarity=0.384 Sum_probs=129.0
Q ss_pred CCCCccCCcccccccChhHHHHHHhhccCCChhhhhcCcccccCCCccccCCCCCccCChHHHHHHHhhcCCCccccccc
Q 008017 61 GNPGINFSLFNFIFFQFWGLIDFVLFESDPDAEVIALSPKSLMATNRFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQRT 140 (581)
Q Consensus 61 ~~~~~~C~~C~k~F~~~~~L~~H~~~h~~~~~~~~~~~~k~~~~~k~f~C~~Cgk~F~~~s~L~~H~r~H~~p~~~~~~~ 140 (581)
....|.|.+|++.|....+|.+|..+|-.-+. .+.|.|++|+|.|.....|+.|+|+|.
T Consensus 127 ~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s------------~ka~~C~~C~K~YvSmpALkMHirTH~--------- 185 (279)
T KOG2462|consen 127 KHPRYKCPECGKSYSTSSNLSRHKQTHRSLDS------------KKAFSCKYCGKVYVSMPALKMHIRTHT--------- 185 (279)
T ss_pred cCCceeccccccccccccccchhhcccccccc------------cccccCCCCCceeeehHHHhhHhhccC---------
Confidence 56789999999999999999999999987443 678999999999999999999999995
Q ss_pred ccccccccccCCCCCccCCCCCCcccCchhhhhhhhcccCCccccccccCCccCChhHHHHHHhh-hCCCceeec-CCCc
Q 008017 141 NKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAHSKI-CGTREYKCD-CGKL 218 (581)
Q Consensus 141 ~~~~~~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~gekp~~C~~Cgk~F~~~s~L~~H~~~-~gekpy~C~-Cgk~ 218 (581)
-+++|.+| ||+|.+..-|+-|+|+|+|||||.|..|+|+|+.+++|+.||.+ .+.|+|.|. |+|+
T Consensus 186 ------l~c~C~iC-------GKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~Ks 252 (279)
T KOG2462|consen 186 ------LPCECGIC-------GKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKS 252 (279)
T ss_pred ------CCcccccc-------cccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhH
Confidence 67899999 99999999999999999999999999999999999999999999 788999999 9999
Q ss_pred cCChhHHHHHHhh
Q 008017 219 FSRRDSFITHRAF 231 (581)
Q Consensus 219 F~~~~~L~~H~~~ 231 (581)
|.+++.|.+|...
T Consensus 253 Fsl~SyLnKH~ES 265 (279)
T KOG2462|consen 253 FALKSYLNKHSES 265 (279)
T ss_pred HHHHHHHHHhhhh
Confidence 9999999999865
No 2
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.83 E-value=2.2e-21 Score=191.46 Aligned_cols=110 Identities=25% Similarity=0.454 Sum_probs=104.7
Q ss_pred CCCCCCccCCcccccccChhHHHHHHhhccCCChhhhhcCcccccCCCccccCCCCCccCChHHHHHHHhhcCCCccccc
Q 008017 59 LPGNPGINFSLFNFIFFQFWGLIDFVLFESDPDAEVIALSPKSLMATNRFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQ 138 (581)
Q Consensus 59 ~~~~~~~~C~~C~k~F~~~~~L~~H~~~h~~~~~~~~~~~~k~~~~~k~f~C~~Cgk~F~~~s~L~~H~r~H~~p~~~~~ 138 (581)
+...+.+.|++|+|.|.+-..|..|+|+|+- +++|.+|||.|.+.--|+-|+|+|+
T Consensus 156 ~~s~ka~~C~~C~K~YvSmpALkMHirTH~l-----------------~c~C~iCGKaFSRPWLLQGHiRTHT------- 211 (279)
T KOG2462|consen 156 LDSKKAFSCKYCGKVYVSMPALKMHIRTHTL-----------------PCECGICGKAFSRPWLLQGHIRTHT------- 211 (279)
T ss_pred ccccccccCCCCCceeeehHHHhhHhhccCC-----------------CcccccccccccchHHhhccccccc-------
Confidence 3446789999999999999999999999984 6899999999999999999999999
Q ss_pred ccccccccccccCCCCCccCCCCCCcccCchhhhhhhhcccCCccccccccCCccCChhHHHHHHhh
Q 008017 139 RTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAHSKI 205 (581)
Q Consensus 139 ~~~~~~~~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~gekp~~C~~Cgk~F~~~s~L~~H~~~ 205 (581)
|||||.|..| +|+|.++++|+.||.+|.+.|+|+|..|+|.|+..+.|.+|...
T Consensus 212 ------GEKPF~C~hC-------~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 212 ------GEKPFSCPHC-------GKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred ------CCCCccCCcc-------cchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhh
Confidence 9999999999 99999999999999999999999999999999999999999876
No 3
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.69 E-value=3.1e-18 Score=188.46 Aligned_cols=79 Identities=22% Similarity=0.487 Sum_probs=69.6
Q ss_pred cccCCCCCccCCCCCCcccCchhhhhhhhcccCCccccccccCCccCChhHHHHHHhhhCCCc-----eeec----CCCc
Q 008017 148 VYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAHSKICGTRE-----YKCD----CGKL 218 (581)
Q Consensus 148 py~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~gekp~~C~~Cgk~F~~~s~L~~H~~~~gekp-----y~C~----Cgk~ 218 (581)
+-+|-+| -|+..-++.|+.|+|+|+|||||+|++||++|+++.+|+.|+-+|..|| |.|. |-+.
T Consensus 605 PNqCiiC-------~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~k 677 (958)
T KOG1074|consen 605 PNQCIIC-------LRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKK 677 (958)
T ss_pred ccceeee-------eecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhccc
Confidence 4577777 9999999999999999999999999999999999999999998877665 6674 8889
Q ss_pred cCChhHHHHHHhhhh
Q 008017 219 FSRRDSFITHRAFCD 233 (581)
Q Consensus 219 F~~~~~L~~H~~~h~ 233 (581)
|...-.|..|+++|.
T Consensus 678 ftn~V~lpQhIriH~ 692 (958)
T KOG1074|consen 678 FTNAVTLPQHIRIHL 692 (958)
T ss_pred ccccccccceEEeec
Confidence 999999999998885
No 4
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.67 E-value=2.1e-17 Score=155.73 Aligned_cols=113 Identities=24% Similarity=0.534 Sum_probs=105.1
Q ss_pred CCccccCCCCCccCChHHHHHHHhhcCCCcccccccccccccccccCCCCCccCCCCCCcccCchhhhhhhhcccCCccc
Q 008017 105 TNRFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKW 184 (581)
Q Consensus 105 ~k~f~C~~Cgk~F~~~s~L~~H~r~H~~p~~~~~~~~~~~~~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~gekp~ 184 (581)
...|.|.+|+|.|....-|.+|++.|. ..|.|.|..| ||.|.+.-.|++|+|+|+|.+||
T Consensus 115 ~d~ftCrvCgK~F~lQRmlnrh~kch~-------------~vkr~lct~c-------gkgfndtfdlkrh~rthtgvrpy 174 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRMLNRHLKCHS-------------DVKRHLCTFC-------GKGFNDTFDLKRHTRTHTGVRPY 174 (267)
T ss_pred CCeeeeehhhhhhhHHHHHHHHhhhcc-------------HHHHHHHhhc-------cCcccchhhhhhhhccccCcccc
Confidence 567999999999999999999999998 7899999999 99999999999999999999999
Q ss_pred cccccCCccCChhHHHHHHhh-hC-----------CCceeec-CCCccCChhHHHHHHhhhhhhhh
Q 008017 185 KCEKCSKKYAVQSDWKAHSKI-CG-----------TREYKCD-CGKLFSRRDSFITHRAFCDVLAE 237 (581)
Q Consensus 185 ~C~~Cgk~F~~~s~L~~H~~~-~g-----------ekpy~C~-Cgk~F~~~~~L~~H~~~h~~~~~ 237 (581)
+|..|+|.|+.+-.|..|++. || +|.|.|+ ||.+-.+...+..|++.|+....
T Consensus 175 kc~~c~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~Sp 240 (267)
T KOG3576|consen 175 KCSLCEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFSP 240 (267)
T ss_pred chhhhhHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCCH
Confidence 999999999999999999987 75 4679999 99999999999999999885443
No 5
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.65 E-value=1e-16 Score=176.65 Aligned_cols=58 Identities=21% Similarity=0.499 Sum_probs=53.7
Q ss_pred ccccccCCccCChhHHHHHHhh-hCCCceeec-CCCccCChhHHHHHHhhhhhhhhhccc
Q 008017 184 WKCEKCSKKYAVQSDWKAHSKI-CGTREYKCD-CGKLFSRRDSFITHRAFCDVLAEESAR 241 (581)
Q Consensus 184 ~~C~~Cgk~F~~~s~L~~H~~~-~gekpy~C~-Cgk~F~~~~~L~~H~~~h~~~~~~~~~ 241 (581)
+.|.+|+|.|...+.|..|+|+ +++|||.|. |++.|..+.+|+.||.+|......+.|
T Consensus 880 h~C~vCgk~FsSSsALqiH~rTHtg~KPF~C~fC~~aFttrgnLKvHMgtH~w~q~~srr 939 (958)
T KOG1074|consen 880 HVCNVCGKQFSSSAALEIHMRTHTGPKPFFCHFCEEAFTTRGNLKVHMGTHMWVQPPSRR 939 (958)
T ss_pred hhhccchhcccchHHHHHhhhcCCCCCCccchhhhhhhhhhhhhhhhhccccccCCCccC
Confidence 6699999999999999999999 899999999 999999999999999999876666555
No 6
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.62 E-value=1.5e-16 Score=160.57 Aligned_cols=163 Identities=18% Similarity=0.279 Sum_probs=109.9
Q ss_pred CcccccccChhHHHHHHhhccCCChhhhhcC---------------cccccCCCccccCCCCCccCChHHHHHHHhhcCC
Q 008017 68 SLFNFIFFQFWGLIDFVLFESDPDAEVIALS---------------PKSLMATNRFLCEICNKGFQRDQNLQLHRRGHNL 132 (581)
Q Consensus 68 ~~C~k~F~~~~~L~~H~~~h~~~~~~~~~~~---------------~k~~~~~k~f~C~~Cgk~F~~~s~L~~H~r~H~~ 132 (581)
..|-+.|..+..|++|+|.|++++...|..+ ..+....++|.|..|.|.|.++..|+.|++.|..
T Consensus 183 ~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn 262 (467)
T KOG3608|consen 183 AMCTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVN 262 (467)
T ss_pred hhhhhhhccHHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhh
Confidence 3566666666666666666665443222111 1122346789999999999999999999999875
Q ss_pred Cccccc-------------c-cccccccccccCCCCCccCCCCCCcccCchhhhhhhhcccCCccccccc--cCCccCCh
Q 008017 133 PWKLKQ-------------R-TNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEK--CSKKYAVQ 196 (581)
Q Consensus 133 p~~~~~-------------~-~~~~~~~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~gekp~~C~~--Cgk~F~~~ 196 (581)
.|+|.- + ...+...|||+|+.| ++.|.+.+.|.+|..+|. +-.|.|+. |...|...
T Consensus 263 ~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~C-------d~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~ 334 (467)
T KOG3608|consen 263 CYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDEC-------DTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTY 334 (467)
T ss_pred cccccccccCCCChHHHHHHHHhhhccCCCccccch-------hhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHH
Confidence 555531 1 123345778888877 777777888888877776 56677876 77777777
Q ss_pred hHHHHHHhh-h-C--CCceeec-CCCccCChhHHHHHHhhhhhhhhh
Q 008017 197 SDWKAHSKI-C-G--TREYKCD-CGKLFSRRDSFITHRAFCDVLAEE 238 (581)
Q Consensus 197 s~L~~H~~~-~-g--ekpy~C~-Cgk~F~~~~~L~~H~~~h~~~~~~ 238 (581)
..+++|++. | | +-+|.|. |++.|.+-.+|.+|++..|....+
T Consensus 335 ~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~kkH~f~~P 381 (467)
T KOG3608|consen 335 TQMRRHFLEVHEGNNPILYACHCCDRFFTSGKSLSAHLMKKHGFRLP 381 (467)
T ss_pred HHHHHHHHHhccCCCCCceeeecchhhhccchhHHHHHHHhhcccCC
Confidence 778888777 4 2 3458888 888888888888887655544333
No 7
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.60 E-value=3.1e-16 Score=147.85 Aligned_cols=114 Identities=24% Similarity=0.397 Sum_probs=104.8
Q ss_pred CCCCCCccCCcccccccChhHHHHHHhhccCCChhhhhcCcccccCCCccccCCCCCccCChHHHHHHHhhcCCCccccc
Q 008017 59 LPGNPGINFSLFNFIFFQFWGLIDFVLFESDPDAEVIALSPKSLMATNRFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQ 138 (581)
Q Consensus 59 ~~~~~~~~C~~C~k~F~~~~~L~~H~~~h~~~~~~~~~~~~k~~~~~k~f~C~~Cgk~F~~~s~L~~H~r~H~~p~~~~~ 138 (581)
-+....|.|.+|+|.|...+-|.+|++-|.+ .|+|-|..|||.|.....|++|+|+|+
T Consensus 112 ssd~d~ftCrvCgK~F~lQRmlnrh~kch~~---------------vkr~lct~cgkgfndtfdlkrh~rtht------- 169 (267)
T KOG3576|consen 112 SSDQDSFTCRVCGKKFGLQRMLNRHLKCHSD---------------VKRHLCTFCGKGFNDTFDLKRHTRTHT------- 169 (267)
T ss_pred CCCCCeeeeehhhhhhhHHHHHHHHhhhccH---------------HHHHHHhhccCcccchhhhhhhhcccc-------
Confidence 4456789999999999999999999999998 788999999999999999999999999
Q ss_pred ccccccccccccCCCCCccCCCCCCcccCchhhhhhhhcccC-----------CccccccccCCccCChhHHHHHHhh-h
Q 008017 139 RTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHG-----------EKKWKCEKCSKKYAVQSDWKAHSKI-C 206 (581)
Q Consensus 139 ~~~~~~~~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~g-----------ekp~~C~~Cgk~F~~~s~L~~H~~~-~ 206 (581)
|.+||+|..| +|+|+.+..|..|.+.-+| +|-|.|+.||..-.....+..|++. |
T Consensus 170 ------gvrpykc~~c-------~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~h 236 (267)
T KOG3576|consen 170 ------GVRPYKCSLC-------EKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHH 236 (267)
T ss_pred ------Cccccchhhh-------hHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcC
Confidence 9999999999 9999999999999886554 5779999999999999999999998 5
Q ss_pred C
Q 008017 207 G 207 (581)
Q Consensus 207 g 207 (581)
.
T Consensus 237 p 237 (267)
T KOG3576|consen 237 P 237 (267)
T ss_pred C
Confidence 3
No 8
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.48 E-value=2.4e-14 Score=144.83 Aligned_cols=100 Identities=24% Similarity=0.516 Sum_probs=72.6
Q ss_pred ccCCCccccCCCCCccCChHHHHHHHhhcCCCcccccccccccccccccCCCCCccCCCCCCcccCchhhhhhhhccc-C
Q 008017 102 LMATNRFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKH-G 180 (581)
Q Consensus 102 ~~~~k~f~C~~Cgk~F~~~s~L~~H~r~H~~p~~~~~~~~~~~~~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~-g 180 (581)
|...|+|+|+.|.+.|.+.+.|.+|..+| .+..|.|....| ...|+.+..+++|++.++ |
T Consensus 287 Hs~dkpfKCd~Cd~~c~~esdL~kH~~~H--------------S~~~y~C~h~~C-----~~s~r~~~q~~~H~~evhEg 347 (467)
T KOG3608|consen 287 HSKDKPFKCDECDTRCVRESDLAKHVQVH--------------SKTVYQCEHPDC-----HYSVRTYTQMRRHFLEVHEG 347 (467)
T ss_pred hccCCCccccchhhhhccHHHHHHHHHhc--------------cccceecCCCCC-----cHHHHHHHHHHHHHHHhccC
Confidence 34455666666666666666666666555 377899988433 999999999999999776 4
Q ss_pred --CccccccccCCccCChhHHHHHHhh-hC------CCceeec-CCCccC
Q 008017 181 --EKKWKCEKCSKKYAVQSDWKAHSKI-CG------TREYKCD-CGKLFS 220 (581)
Q Consensus 181 --ekp~~C~~Cgk~F~~~s~L~~H~~~-~g------ekpy~C~-Cgk~F~ 220 (581)
+-+|+|..|++.|++-.+|.+|++. |+ -+.|.-. |.-.|-
T Consensus 348 ~np~~Y~CH~Cdr~ft~G~~L~~HL~kkH~f~~PsGh~RFtYk~~edG~m 397 (467)
T KOG3608|consen 348 NNPILYACHCCDRFFTSGKSLSAHLMKKHGFRLPSGHKRFTYKVDEDGFM 397 (467)
T ss_pred CCCCceeeecchhhhccchhHHHHHHHhhcccCCCCCCceeeeeccCcee
Confidence 4569999999999999999999877 64 3445444 554443
No 9
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.47 E-value=1.1e-14 Score=158.06 Aligned_cols=123 Identities=16% Similarity=0.337 Sum_probs=102.7
Q ss_pred CCccCCcccccccChhHHHHHHhhccCCChhhhhcCcccccCCCccccCCCCCccCChHHHHHHHhhcCCCccccccccc
Q 008017 63 PGINFSLFNFIFFQFWGLIDFVLFESDPDAEVIALSPKSLMATNRFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNK 142 (581)
Q Consensus 63 ~~~~C~~C~k~F~~~~~L~~H~~~h~~~~~~~~~~~~k~~~~~k~f~C~~Cgk~F~~~s~L~~H~r~H~~p~~~~~~~~~ 142 (581)
+..+|..|.+.+.+...|+.|+++-+... +.-|.|..|...|.++..|.+|+.+|...-.-......
T Consensus 209 qlltcpycdrgykrltslkeHikyrhekn-------------e~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltq 275 (1007)
T KOG3623|consen 209 QLLTCPYCDRGYKRLTSLKEHIKYRHEKN-------------EPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQ 275 (1007)
T ss_pred hhhcchhHHHHHHHHHHHHHHHHHHHhhC-------------CCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccc
Confidence 56789999999999999999999866522 45699999999999999999999999621111122222
Q ss_pred ccccccccCCCCCccCCCCCCcccCchhhhhhhhcccCCccccccccCCccCChhHHHHHHhh
Q 008017 143 VERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAHSKI 205 (581)
Q Consensus 143 ~~~~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~gekp~~C~~Cgk~F~~~s~L~~H~~~ 205 (581)
....+.|+|.+| +|+|+.+..|+.|+|+|.|||||.|+-|+|+|.....+..||..
T Consensus 276 sa~lRKFKCtEC-------gKAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmSS 331 (1007)
T KOG3623|consen 276 SALLRKFKCTEC-------GKAFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMSS 331 (1007)
T ss_pred hhhhcccccccc-------chhhhhHHHHHhhheeecCCCCcCCcccccccccCCcccccccc
Confidence 336788999999 99999999999999999999999999999999999999999864
No 10
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.40 E-value=1e-13 Score=150.68 Aligned_cols=81 Identities=25% Similarity=0.588 Sum_probs=76.0
Q ss_pred CCccccCCCCCccCChHHHHHHHhhcCCCcccccccccccccccccCCCCCccCCCCCCcccCchhhhhhhhcccCCccc
Q 008017 105 TNRFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKW 184 (581)
Q Consensus 105 ~k~f~C~~Cgk~F~~~s~L~~H~r~H~~p~~~~~~~~~~~~~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~gekp~ 184 (581)
+..|.|+.|+|.|...+.|.+|.--|. |.+||+|.+| .|+|+.+..|..|+|.|.|||||
T Consensus 892 ~gmyaCDqCDK~FqKqSSLaRHKYEHs-------------GqRPyqC~iC-------kKAFKHKHHLtEHkRLHSGEKPf 951 (1007)
T KOG3623|consen 892 DGMYACDQCDKAFQKQSSLARHKYEHS-------------GQRPYQCIIC-------KKAFKHKHHLTEHKRLHSGEKPF 951 (1007)
T ss_pred cccchHHHHHHHHHhhHHHHHhhhhhc-------------CCCCcccchh-------hHhhhhhhhhhhhhhhccCCCcc
Confidence 467999999999999999999999998 9999999999 99999999999999999999999
Q ss_pred cccccCCccCChhHHHHHHhh
Q 008017 185 KCEKCSKKYAVQSDWKAHSKI 205 (581)
Q Consensus 185 ~C~~Cgk~F~~~s~L~~H~~~ 205 (581)
.|+.|+|+|.....+..||..
T Consensus 952 QCdKClKRFSHSGSYSQHMNH 972 (1007)
T KOG3623|consen 952 QCDKCLKRFSHSGSYSQHMNH 972 (1007)
T ss_pred hhhhhhhhcccccchHhhhcc
Confidence 999999999999999999863
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.19 E-value=4.8e-11 Score=131.35 Aligned_cols=144 Identities=17% Similarity=0.302 Sum_probs=111.5
Q ss_pred CccCCcccccccChhHHHHHHhhccCCCh----hhhhcCcccccCCCccccCCCCCccCChHHHHHHHhhcCCCcccccc
Q 008017 64 GINFSLFNFIFFQFWGLIDFVLFESDPDA----EVIALSPKSLMATNRFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQR 139 (581)
Q Consensus 64 ~~~C~~C~k~F~~~~~L~~H~~~h~~~~~----~~~~~~~k~~~~~k~f~C~~Cgk~F~~~s~L~~H~r~H~~p~~~~~~ 139 (581)
...|..|......+. |..|......... ..|.........++.+.|+.|++.|. ...|..|+++|+
T Consensus 407 ~V~C~NC~~~i~l~~-l~lHe~~C~r~~V~Cp~~~Cg~v~~r~el~~H~~C~~Cgk~f~-~s~LekH~~~~H-------- 476 (567)
T PLN03086 407 TVECRNCKHYIPSRS-IALHEAYCSRHNVVCPHDGCGIVLRVEEAKNHVHCEKCGQAFQ-QGEMEKHMKVFH-------- 476 (567)
T ss_pred eEECCCCCCccchhH-HHHHHhhCCCcceeCCcccccceeeccccccCccCCCCCCccc-hHHHHHHHHhcC--------
Confidence 446999988776554 4488766543111 01323333444467789999999996 688999999875
Q ss_pred cccccccccccCCCCCccCCCCCCcccCchhhhhhhhcccCCccccccccCCccC----------ChhHHHHHHhhhCCC
Q 008017 140 TNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYA----------VQSDWKAHSKICGTR 209 (581)
Q Consensus 140 ~~~~~~~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~gekp~~C~~Cgk~F~----------~~s~L~~H~~~~gek 209 (581)
++|.|+ | ++.+ .+..|..|+.+|..++++.|..|++.|. ....|..|...+|.+
T Consensus 477 -------kpv~Cp-C-------g~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~CG~r 540 (567)
T PLN03086 477 -------EPLQCP-C-------GVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESICGSR 540 (567)
T ss_pred -------CCccCC-C-------CCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhcCCc
Confidence 689999 8 7655 6789999999999999999999999995 245899999999999
Q ss_pred ceeec-CCCccCChhHHHHHHhhhhh
Q 008017 210 EYKCD-CGKLFSRRDSFITHRAFCDV 234 (581)
Q Consensus 210 py~C~-Cgk~F~~~~~L~~H~~~h~~ 234 (581)
++.|. |++.|..+ .|..|+..+|.
T Consensus 541 t~~C~~Cgk~Vrlr-dm~~H~~~~h~ 565 (567)
T PLN03086 541 TAPCDSCGRSVMLK-EMDIHQIAVHQ 565 (567)
T ss_pred ceEccccCCeeeeh-hHHHHHHHhhc
Confidence 99999 99998765 67889887764
No 12
>PHA00733 hypothetical protein
Probab=98.83 E-value=2.9e-09 Score=96.94 Aligned_cols=84 Identities=15% Similarity=0.273 Sum_probs=69.4
Q ss_pred ccccccCCCCCccCCCCCCcccCchhhhhh--h---hcccCCccccccccCCccCChhHHHHHHhhhCCCceeec-CCCc
Q 008017 145 RKKVYVCPEPTCVHHDPSRALGDLTGIKKH--F---SRKHGEKKWKCEKCSKKYAVQSDWKAHSKICGTREYKCD-CGKL 218 (581)
Q Consensus 145 ~~kpy~C~~C~C~~~~~~k~F~~~s~L~~H--~---~~H~gekp~~C~~Cgk~F~~~s~L~~H~~~~gekpy~C~-Cgk~ 218 (581)
..+++.|.+| .+.|.....|..| + ..++++++|.|+.|++.|.....|..|++.+ +++|.|. |++.
T Consensus 37 ~~~~~~~~~~-------~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h-~~~~~C~~CgK~ 108 (128)
T PHA00733 37 EQKRLIRAVV-------KTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT-EHSKVCPVCGKE 108 (128)
T ss_pred hhhhHHHHHH-------hhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC-CcCccCCCCCCc
Confidence 4688999999 7777766655554 1 2334589999999999999999999999875 5679999 9999
Q ss_pred cCChhHHHHHHhhhhhhh
Q 008017 219 FSRRDSFITHRAFCDVLA 236 (581)
Q Consensus 219 F~~~~~L~~H~~~h~~~~ 236 (581)
|.....|.+|+...|..+
T Consensus 109 F~~~~sL~~H~~~~h~~~ 126 (128)
T PHA00733 109 FRNTDSTLDHVCKKHNIC 126 (128)
T ss_pred cCCHHHHHHHHHHhcCcc
Confidence 999999999998877654
No 13
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.79 E-value=8.6e-09 Score=113.80 Aligned_cols=103 Identities=13% Similarity=0.249 Sum_probs=85.7
Q ss_pred CCCCccCCcccccccChhHHHHHHhhccCCChhhhhcCcccccCCCccccCCCCCccCChHHHHHHHhhcCCCccccccc
Q 008017 61 GNPGINFSLFNFIFFQFWGLIDFVLFESDPDAEVIALSPKSLMATNRFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQRT 140 (581)
Q Consensus 61 ~~~~~~C~~C~k~F~~~~~L~~H~~~h~~~~~~~~~~~~k~~~~~k~f~C~~Cgk~F~~~s~L~~H~r~H~~p~~~~~~~ 140 (581)
....+.|..|++.|. ...|..|++.|+ ++|.|+ |++.+ .+..|..|+++|.
T Consensus 450 l~~H~~C~~Cgk~f~-~s~LekH~~~~H-----------------kpv~Cp-Cg~~~-~R~~L~~H~~thC--------- 500 (567)
T PLN03086 450 AKNHVHCEKCGQAFQ-QGEMEKHMKVFH-----------------EPLQCP-CGVVL-EKEQMVQHQASTC--------- 500 (567)
T ss_pred cccCccCCCCCCccc-hHHHHHHHHhcC-----------------CCccCC-CCCCc-chhHHHhhhhccC---------
Confidence 345679999999996 688999999875 368999 99865 6799999999998
Q ss_pred ccccccccccCCCCCccCCCCCCccc----------CchhhhhhhhcccCCccccccccCCccCChhHHHHHHhh
Q 008017 141 NKVERKKVYVCPEPTCVHHDPSRALG----------DLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAHSKI 205 (581)
Q Consensus 141 ~~~~~~kpy~C~~C~C~~~~~~k~F~----------~~s~L~~H~~~H~gekp~~C~~Cgk~F~~~s~L~~H~~~ 205 (581)
.++++.|.+| ++.|. ....|..|...+ +.+++.|..||+.|..+ .|..|+..
T Consensus 501 ----p~Kpi~C~fC-------~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt~~C~~Cgk~Vrlr-dm~~H~~~ 562 (567)
T PLN03086 501 ----PLRLITCRFC-------GDMVQAGGSAMDVRDRLRGMSEHESIC-GSRTAPCDSCGRSVMLK-EMDIHQIA 562 (567)
T ss_pred ----CCCceeCCCC-------CCccccCccccchhhhhhhHHHHHHhc-CCcceEccccCCeeeeh-hHHHHHHH
Confidence 8999999999 88774 245899999885 99999999999987665 57778766
No 14
>PHA00733 hypothetical protein
Probab=98.75 E-value=6.3e-09 Score=94.69 Aligned_cols=84 Identities=17% Similarity=0.202 Sum_probs=70.8
Q ss_pred CCccccCCCCCccCChHHHHHH--HhhcCCCcccccccccccccccccCCCCCccCCCCCCcccCchhhhhhhhcccCCc
Q 008017 105 TNRFLCEICNKGFQRDQNLQLH--RRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEK 182 (581)
Q Consensus 105 ~k~f~C~~Cgk~F~~~s~L~~H--~r~H~~p~~~~~~~~~~~~~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~gek 182 (581)
.+++.|.+|.+.|.....|..| ++.|. ...+.++|.|+.| ++.|.....|..|++.| +.
T Consensus 38 ~~~~~~~~~~~~~~~~~~l~~~~~l~~~~----------~~~~~kPy~C~~C-------gk~Fss~s~L~~H~r~h--~~ 98 (128)
T PHA00733 38 QKRLIRAVVKTLIYNPQLLDESSYLYKLL----------TSKAVSPYVCPLC-------LMPFSSSVSLKQHIRYT--EH 98 (128)
T ss_pred hhhHHHHHHhhhccChhhhcchHHHHhhc----------ccCCCCCccCCCC-------CCcCCCHHHHHHHHhcC--Cc
Confidence 6889999999999998888776 33221 0115789999999 99999999999999987 46
Q ss_pred cccccccCCccCChhHHHHHHhh-hC
Q 008017 183 KWKCEKCSKKYAVQSDWKAHSKI-CG 207 (581)
Q Consensus 183 p~~C~~Cgk~F~~~s~L~~H~~~-~g 207 (581)
+|.|.+|++.|.....|.+|+.. |+
T Consensus 99 ~~~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 99 SKVCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred CccCCCCCCccCCHHHHHHHHHHhcC
Confidence 79999999999999999999987 64
No 15
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.74 E-value=1.3e-09 Score=113.29 Aligned_cols=150 Identities=14% Similarity=0.183 Sum_probs=108.9
Q ss_pred CccCCcccccccChhHHHHHHhhccCCChhhhhcCcccccCCCccccCCCCCccCChHHHHHHHhhcCCCcccc------
Q 008017 64 GINFSLFNFIFFQFWGLIDFVLFESDPDAEVIALSPKSLMATNRFLCEICNKGFQRDQNLQLHRRGHNLPWKLK------ 137 (581)
Q Consensus 64 ~~~C~~C~k~F~~~~~L~~H~~~h~~~~~~~~~~~~k~~~~~k~f~C~~Cgk~F~~~s~L~~H~r~H~~p~~~~------ 137 (581)
.|.|..|...|.+-..|.+|..--= - --.|+|.+|+|.|....||-.|+|+|.-.....
T Consensus 267 dyiCqLCK~kYeD~F~LAQHrC~RI-------------V--~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P 331 (500)
T KOG3993|consen 267 DYICQLCKEKYEDAFALAQHRCPRI-------------V--HVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPP 331 (500)
T ss_pred HHHHHHHHHhhhhHHHHhhccCCee-------------E--EeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCC
Confidence 5889999999999999999976211 0 123999999999999999999999996111110
Q ss_pred --cc------------cccccccccccCCCCCccCCCCCCcccCchhhhhhhhcccCC----------------------
Q 008017 138 --QR------------TNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGE---------------------- 181 (581)
Q Consensus 138 --~~------------~~~~~~~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~ge---------------------- 181 (581)
+. .-.......|.|.+| +|.|.+...|++|..+|+..
T Consensus 332 ~k~~~~~rae~~ea~rsg~dss~gi~~C~~C-------~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~ 404 (500)
T KOG3993|consen 332 PKQAVETRAEVQEAERSGDDSSSGIFSCHTC-------GKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFN 404 (500)
T ss_pred hhhhhhhhhhhhhccccCCcccCceeecHHh-------hhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccc
Confidence 00 001123347999999 99999999999998887631
Q ss_pred ------------------------ccccccccCCccCChhHHHHHHhh-hCCCceeec-CCCccCChhHHHHHHhhhhhh
Q 008017 182 ------------------------KKWKCEKCSKKYAVQSDWKAHSKI-CGTREYKCD-CGKLFSRRDSFITHRAFCDVL 235 (581)
Q Consensus 182 ------------------------kp~~C~~Cgk~F~~~s~L~~H~~~-~gekpy~C~-Cgk~F~~~~~L~~H~~~h~~~ 235 (581)
....|+.|+-.+..+..--.|.+. +.+.-|.|+ |.-.|.....|.+|...||..
T Consensus 405 ~~~a~h~~a~~~~g~~vl~~a~sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~Hps 484 (500)
T KOG3993|consen 405 QAVATHSSASDSHGDEVLYVAGSAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCHPS 484 (500)
T ss_pred cccccccccccccccceeeeeccccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcChH
Confidence 012245555555555554555555 556679999 999999999999999998843
No 16
>PHA02768 hypothetical protein; Provisional
Probab=98.35 E-value=2.6e-07 Score=70.66 Aligned_cols=44 Identities=18% Similarity=0.258 Sum_probs=39.8
Q ss_pred ccccCCCCCccCChHHHHHHHhhcCCCcccccccccccccccccCCCCCccCCCCCCcccCchhhh
Q 008017 107 RFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIK 172 (581)
Q Consensus 107 ~f~C~~Cgk~F~~~s~L~~H~r~H~~p~~~~~~~~~~~~~kpy~C~~C~C~~~~~~k~F~~~s~L~ 172 (581)
-|+|++|||.|....+|..|+++|. ++|+|..| ++.|...+.|.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~---------------k~~kc~~C-------~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN---------------TNLKLSNC-------KRISLRTGEYI 48 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC---------------CcccCCcc-------cceecccceeE
Confidence 4899999999999999999999995 68999999 99999887765
No 17
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.29 E-value=5.1e-07 Score=94.34 Aligned_cols=147 Identities=14% Similarity=0.132 Sum_probs=99.5
Q ss_pred CCCCCCCCCCCCCccCCcccccccChhHHHHHHhhccCCChhhhhcC--c-----------cc-----ccCCCccccCCC
Q 008017 52 PSKKKRSLPGNPGINFSLFNFIFFQFWGLIDFVLFESDPDAEVIALS--P-----------KS-----LMATNRFLCEIC 113 (581)
Q Consensus 52 ~~kkkr~~~~~~~~~C~~C~k~F~~~~~L~~H~~~h~~~~~~~~~~~--~-----------k~-----~~~~k~f~C~~C 113 (581)
...++=....---|+|.+|+|.|.-.-+|..|+|-|........+.. . .. -..+.-|.|.+|
T Consensus 283 LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~rsg~dss~gi~~C~~C 362 (500)
T KOG3993|consen 283 LAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAERSGDDSSSGIFSCHTC 362 (500)
T ss_pred HhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccccCCcccCceeecHHh
Confidence 33444333445579999999999999999999999874222110000 0 00 133457999999
Q ss_pred CCccCChHHHHHHHhhcCCCcccc----------------------cc---ccccc--------ccccccCCCCCccCCC
Q 008017 114 NKGFQRDQNLQLHRRGHNLPWKLK----------------------QR---TNKVE--------RKKVYVCPEPTCVHHD 160 (581)
Q Consensus 114 gk~F~~~s~L~~H~r~H~~p~~~~----------------------~~---~~~~~--------~~kpy~C~~C~C~~~~ 160 (581)
+|.|++...|++|+.+|++-...+ .+ ...+. ......|++|
T Consensus 363 ~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl~~a~sael~~pp~~------ 436 (500)
T KOG3993|consen 363 GKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEVLYVAGSAELELPPYD------ 436 (500)
T ss_pred hhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccccccccccceeeeeccccccCCCCC------
Confidence 999999999999998887211111 00 00000 1223456676
Q ss_pred CCCcccCchhhhhhhhcccCCccccccccCCccCChhHHHHHHhh
Q 008017 161 PSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAHSKI 205 (581)
Q Consensus 161 ~~k~F~~~s~L~~H~~~H~gekp~~C~~Cgk~F~~~s~L~~H~~~ 205 (581)
+..+..+..-..|.+.-..+.-|.|.+|--.|.....|.+|+..
T Consensus 437 -~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~ 480 (500)
T KOG3993|consen 437 -GSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINK 480 (500)
T ss_pred -CCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhh
Confidence 66666666666666666677789999999999999999999887
No 18
>PHA02768 hypothetical protein; Provisional
Probab=98.27 E-value=2.5e-07 Score=70.81 Aligned_cols=41 Identities=17% Similarity=0.468 Sum_probs=19.6
Q ss_pred ccccccCCccCChhHHHHHHhhhCCCceeec-CCCccCChhHH
Q 008017 184 WKCEKCSKKYAVQSDWKAHSKICGTREYKCD-CGKLFSRRDSF 225 (581)
Q Consensus 184 ~~C~~Cgk~F~~~s~L~~H~~~~gekpy~C~-Cgk~F~~~~~L 225 (581)
|.|+.|||.|.+.+.|..|+++|. ++|+|. |++.|.+.+.|
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~-k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN-TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC-CcccCCcccceeccccee
Confidence 445555555555555555554432 444554 55554444433
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=98.10 E-value=8e-07 Score=57.99 Aligned_cols=26 Identities=31% Similarity=0.824 Sum_probs=22.1
Q ss_pred hhhhhhhcccCCccccccccCCccCC
Q 008017 170 GIKKHFSRKHGEKKWKCEKCSKKYAV 195 (581)
Q Consensus 170 ~L~~H~~~H~gekp~~C~~Cgk~F~~ 195 (581)
+|.+|+++|+++|||+|++|++.|.+
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 47889999999999999999988863
No 20
>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=97.71 E-value=2e-05 Score=51.40 Aligned_cols=26 Identities=19% Similarity=0.474 Sum_probs=23.2
Q ss_pred HHHHHHhhccCCChhhhhcCcccccCCCccccCCCCCccCC
Q 008017 79 GLIDFVLFESDPDAEVIALSPKSLMATNRFLCEICNKGFQR 119 (581)
Q Consensus 79 ~L~~H~~~h~~~~~~~~~~~~k~~~~~k~f~C~~Cgk~F~~ 119 (581)
+|.+|+++|++ +++|.|++|++.|.+
T Consensus 1 ~l~~H~~~H~~---------------~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTG---------------EKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSS---------------SSSEEESSSSEEESS
T ss_pred CHHHHhhhcCC---------------CCCCCCCCCcCeeCc
Confidence 58899999987 889999999999964
No 21
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.67 E-value=1.2e-05 Score=81.50 Aligned_cols=28 Identities=29% Similarity=0.631 Sum_probs=21.0
Q ss_pred ccccccCCCCCccCCCCCCcccCchhhhhhhhc
Q 008017 145 RKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSR 177 (581)
Q Consensus 145 ~~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~ 177 (581)
.+|||+|++-|| .|.|+....|+.|+.-
T Consensus 346 d~KpykCpV~gC-----~K~YknqnGLKYH~lh 373 (423)
T COG5189 346 DGKPYKCPVEGC-----NKKYKNQNGLKYHMLH 373 (423)
T ss_pred cCceecCCCCCc-----hhhhccccchhhhhhc
Confidence 457888888777 7888888888877764
No 22
>PHA00732 hypothetical protein
Probab=97.57 E-value=6e-05 Score=62.77 Aligned_cols=49 Identities=22% Similarity=0.413 Sum_probs=33.8
Q ss_pred ccccCCCCCccCChHHHHHHHhhcCCCcccccccccccccccccCCCCCccCCCCCCcccCchhhhhhhhcccC
Q 008017 107 RFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHG 180 (581)
Q Consensus 107 ~f~C~~Cgk~F~~~s~L~~H~r~H~~p~~~~~~~~~~~~~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~g 180 (581)
+|.|++|++.|.+...|+.|++.++ . ++.|++| ++.|. .|..|++++.+
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H-------------~--~~~C~~C-------gKsF~---~l~~H~~~~~~ 49 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNH-------------T--LTKCPVC-------NKSYR---RLNQHFYSQYD 49 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhccc-------------C--CCccCCC-------CCEeC---ChhhhhcccCC
Confidence 4778888888888888888877432 1 2467777 77776 46777765554
No 23
>PHA00616 hypothetical protein
Probab=97.57 E-value=2.4e-05 Score=57.21 Aligned_cols=34 Identities=12% Similarity=0.251 Sum_probs=31.5
Q ss_pred ccccCCCCCccCChHHHHHHHhhcCCCcccccccccccccccccCCC
Q 008017 107 RFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPE 153 (581)
Q Consensus 107 ~f~C~~Cgk~F~~~s~L~~H~r~H~~p~~~~~~~~~~~~~kpy~C~~ 153 (581)
+|.|..||+.|...++|.+|++.|+ +++++.|+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~h-------------g~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVH-------------KQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhc-------------CCCccceeE
Confidence 5899999999999999999999998 889988875
No 24
>PHA00616 hypothetical protein
Probab=97.56 E-value=3.1e-05 Score=56.61 Aligned_cols=27 Identities=15% Similarity=0.169 Sum_probs=14.1
Q ss_pred CCcccCchhhhhhhhcccCCccccccc
Q 008017 162 SRALGDLTGIKKHFSRKHGEKKWKCEK 188 (581)
Q Consensus 162 ~k~F~~~s~L~~H~~~H~gekp~~C~~ 188 (581)
|+.|..+..|.+|++.|++++++.|+.
T Consensus 8 G~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 8 GGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred hHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 555555555555555555555555543
No 25
>PHA00732 hypothetical protein
Probab=97.56 E-value=6.1e-05 Score=62.74 Aligned_cols=48 Identities=17% Similarity=0.324 Sum_probs=40.5
Q ss_pred CccCCcccccccChhHHHHHHhhccCCChhhhhcCcccccCCCccccCCCCCccCChHHHHHHHhhcC
Q 008017 64 GINFSLFNFIFFQFWGLIDFVLFESDPDAEVIALSPKSLMATNRFLCEICNKGFQRDQNLQLHRRGHN 131 (581)
Q Consensus 64 ~~~C~~C~k~F~~~~~L~~H~~~h~~~~~~~~~~~~k~~~~~k~f~C~~Cgk~F~~~s~L~~H~r~H~ 131 (581)
.|.|.+|++.|.....|..|++.++. ++.|++|++.|. .|..|.+.+.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~-----------------~~~C~~CgKsF~---~l~~H~~~~~ 48 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT-----------------LTKCPVCNKSYR---RLNQHFYSQY 48 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC-----------------CCccCCCCCEeC---ChhhhhcccC
Confidence 37899999999999999999985332 257999999998 6899987765
No 26
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.52 E-value=2.5e-05 Score=79.19 Aligned_cols=51 Identities=31% Similarity=0.642 Sum_probs=45.8
Q ss_pred CCccccccc--cCCccCChhHHHHHHhh-h-------------------CCCceeec-CCCccCChhHHHHHHh
Q 008017 180 GEKKWKCEK--CSKKYAVQSDWKAHSKI-C-------------------GTREYKCD-CGKLFSRRDSFITHRA 230 (581)
Q Consensus 180 gekp~~C~~--Cgk~F~~~s~L~~H~~~-~-------------------gekpy~C~-Cgk~F~~~~~L~~H~~ 230 (581)
++|||+|++ |.|.|+....|+-|+.. | ..|||+|+ |+|+|+...-|+.|++
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 469999987 99999999999999876 5 35899999 9999999999999985
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=97.38 E-value=0.00022 Score=54.98 Aligned_cols=52 Identities=17% Similarity=0.285 Sum_probs=42.3
Q ss_pred CccCCcccccccChhHHHHHHhhccCCChhhhhcCcccccCCCccccCCCCCccCChHHHHHHHhhcC
Q 008017 64 GINFSLFNFIFFQFWGLIDFVLFESDPDAEVIALSPKSLMATNRFLCEICNKGFQRDQNLQLHRRGHN 131 (581)
Q Consensus 64 ~~~C~~C~k~F~~~~~L~~H~~~h~~~~~~~~~~~~k~~~~~k~f~C~~Cgk~F~~~s~L~~H~r~H~ 131 (581)
.|.|+.|++ ..+...|..|+...+..+ .+.+.|++|...+. .+|..|++.++
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~~-------------~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRSE-------------SKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcCC-------------CCCccCCCchhhhh--hHHHHHHHHhc
Confidence 589999999 566789999999866533 35699999998765 49999998764
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=97.19 E-value=0.00016 Score=45.34 Aligned_cols=23 Identities=43% Similarity=0.902 Sum_probs=21.6
Q ss_pred cccCCCCCccCChHHHHHHHhhc
Q 008017 108 FLCEICNKGFQRDQNLQLHRRGH 130 (581)
Q Consensus 108 f~C~~Cgk~F~~~s~L~~H~r~H 130 (581)
|+|++|++.|.+...|.+|++.|
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 29
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=97.15 E-value=0.00037 Score=53.66 Aligned_cols=52 Identities=25% Similarity=0.446 Sum_probs=31.0
Q ss_pred ccccCCCCCccCChHHHHHHHhhcCCCcccccccccccccccccCCCCCccCCCCCCcccCchhhhhhhhccc
Q 008017 107 RFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKH 179 (581)
Q Consensus 107 ~f~C~~Cgk~F~~~s~L~~H~r~H~~p~~~~~~~~~~~~~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~ 179 (581)
.|.|++|++ ..+...|..|....+. ...+.+.|++| ...+. .+|..|+..++
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~-----------~~~~~v~CPiC-------~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHR-----------SESKNVVCPIC-------SSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCc-----------CCCCCccCCCc-------hhhhh--hHHHHHHHHhc
Confidence 377888888 4456778888655431 12346777777 44333 36666666554
No 30
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=96.83 E-value=0.00058 Score=42.80 Aligned_cols=23 Identities=9% Similarity=-0.095 Sum_probs=21.6
Q ss_pred ccCCcccccccChhHHHHHHhhc
Q 008017 65 INFSLFNFIFFQFWGLIDFVLFE 87 (581)
Q Consensus 65 ~~C~~C~k~F~~~~~L~~H~~~h 87 (581)
|.|.+|++.|..+..|..|++.|
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 68999999999999999999974
No 31
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.79 E-value=0.00074 Score=57.74 Aligned_cols=65 Identities=22% Similarity=0.263 Sum_probs=21.9
Q ss_pred cCCcccccccChhHHHHHHhhccCCChh---hhh----cC-cccccCCCccccCCCCCccCChHHHHHHHhhc
Q 008017 66 NFSLFNFIFFQFWGLIDFVLFESDPDAE---VIA----LS-PKSLMATNRFLCEICNKGFQRDQNLQLHRRGH 130 (581)
Q Consensus 66 ~C~~C~k~F~~~~~L~~H~~~h~~~~~~---~~~----~~-~k~~~~~k~f~C~~Cgk~F~~~s~L~~H~r~H 130 (581)
+|..|+..|.....|..|+...++-... .+. +. .........+.|.+|++.|.+...|..|++.+
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIPDQKYLVDPNRLLNYLRKKVKESFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp ------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHT
T ss_pred CccccccccccccccccccccccccccccccccccccccccccccccCCCCCCCccCCCCcCHHHHHHHHcCc
Confidence 5999999999999999999876653221 000 00 00011123699999999999999999999875
No 32
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.75 E-value=0.0012 Score=74.54 Aligned_cols=67 Identities=19% Similarity=0.304 Sum_probs=43.2
Q ss_pred ccCCCCCccCCCCCCcccCchhhhhhhhcccCCccccccccC------CccCChhHHHHHHhh-hCCCceeec---CC-C
Q 008017 149 YVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCS------KKYAVQSDWKAHSKI-CGTREYKCD---CG-K 217 (581)
Q Consensus 149 y~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~gekp~~C~~Cg------k~F~~~s~L~~H~~~-~gekpy~C~---Cg-k 217 (581)
-.|..| ...|-...+|.+|++.++ |.|..|. .-|.....|..|.|. | |.|+ |. +
T Consensus 183 p~C~~C-------~~~fld~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~H----flCE~~~C~~~ 247 (669)
T KOG2231|consen 183 PLCKFC-------HERFLDDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH----FLCEEEFCRTK 247 (669)
T ss_pred ccchhh-------hhhhccHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhhhcC----ccccccccccc
Confidence 457777 888888888888888776 5566663 356677788888876 5 5664 42 3
Q ss_pred ccCChhHHHHHHh
Q 008017 218 LFSRRDSFITHRA 230 (581)
Q Consensus 218 ~F~~~~~L~~H~~ 230 (581)
.|.....+..|++
T Consensus 248 ~f~~~~~~ei~lk 260 (669)
T KOG2231|consen 248 KFYVAFELEIELK 260 (669)
T ss_pred eeeehhHHHHHHH
Confidence 3444434444444
No 33
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=96.75 E-value=0.00052 Score=73.29 Aligned_cols=148 Identities=22% Similarity=0.268 Sum_probs=100.1
Q ss_pred CCccCCcccccccChhHHHHHHh--hccCCChhhhhcCcccccCCCccccC--CCCCccCChHHHHHHHhhcCC--Cccc
Q 008017 63 PGINFSLFNFIFFQFWGLIDFVL--FESDPDAEVIALSPKSLMATNRFLCE--ICNKGFQRDQNLQLHRRGHNL--PWKL 136 (581)
Q Consensus 63 ~~~~C~~C~k~F~~~~~L~~H~~--~h~~~~~~~~~~~~k~~~~~k~f~C~--~Cgk~F~~~s~L~~H~r~H~~--p~~~ 136 (581)
..+.|..|...|.....|.+|.+ .|..+. -+++.|. .|++.|.+...|.+|...|.. +..+
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~-------------~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 354 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGES-------------LKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKE 354 (467)
T ss_pred cCCCCccccCCcccccccccccccccccccc-------------CCceeeeccCCCccccccccccCCcccccCCCcccc
Confidence 46899999999999999999999 566521 1789999 799999999999999999872 1111
Q ss_pred cc--------------------ccccccccccccCCCCCccCCCCCCcccCchhhhhhhhcccCCc--cccccccCCccC
Q 008017 137 KQ--------------------RTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEK--KWKCEKCSKKYA 194 (581)
Q Consensus 137 ~~--------------------~~~~~~~~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~gek--p~~C~~Cgk~F~ 194 (581)
.. ........+.+.|..-.| .+.+.....+..|...|...+ .+.|..|.+.|.
T Consensus 355 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 429 (467)
T COG5048 355 KLLNSSSKFSPLLNNEPPQSLQQYKDLKNDKKSETLSNSC-----IRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFN 429 (467)
T ss_pred ccccCccccccccCCCCccchhhccCccCCccccccccch-----hhhhccccccccccccccccCCcCCCCCcchhhcc
Confidence 10 000011223444444333 777777777888888777665 355667888888
Q ss_pred ChhHHHHHHhhhCC-CceeecCCCccCChhHHHHH
Q 008017 195 VQSDWKAHSKICGT-REYKCDCGKLFSRRDSFITH 228 (581)
Q Consensus 195 ~~s~L~~H~~~~ge-kpy~C~Cgk~F~~~~~L~~H 228 (581)
....+..|++.+.. .++.|.+-+.|.....+..|
T Consensus 430 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 464 (467)
T COG5048 430 RHYNLIPHKKIHTNHAPLLCSILKSFRRDLDLSNH 464 (467)
T ss_pred CcccccccccccccCCceeeccccccchhhhhhcc
Confidence 88888888887433 44444455555554444433
No 34
>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=96.72 E-value=0.00095 Score=41.72 Aligned_cols=24 Identities=42% Similarity=0.899 Sum_probs=20.3
Q ss_pred cccCCCCCccCChHHHHHHHhhcC
Q 008017 108 FLCEICNKGFQRDQNLQLHRRGHN 131 (581)
Q Consensus 108 f~C~~Cgk~F~~~s~L~~H~r~H~ 131 (581)
|.|++|++.|.+...|+.|++.|+
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 789999999999999999998874
No 35
>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=96.54 E-value=0.0013 Score=42.91 Aligned_cols=25 Identities=36% Similarity=0.699 Sum_probs=23.5
Q ss_pred ccccCCCCCccCChHHHHHHHhhcC
Q 008017 107 RFLCEICNKGFQRDQNLQLHRRGHN 131 (581)
Q Consensus 107 ~f~C~~Cgk~F~~~s~L~~H~r~H~ 131 (581)
+|+|.+|++.|.+...|..|++.|.
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 5899999999999999999999885
No 36
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.35 E-value=0.0022 Score=54.71 Aligned_cols=73 Identities=16% Similarity=0.252 Sum_probs=21.3
Q ss_pred cCCCCCccCCCCCCcccCchhhhhhhhcccCCccccccccCCccCChhHHHHHHhhhCCCceeec-CCCccCChhHHHHH
Q 008017 150 VCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAHSKICGTREYKCD-CGKLFSRRDSFITH 228 (581)
Q Consensus 150 ~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~gekp~~C~~Cgk~F~~~s~L~~H~~~~gekpy~C~-Cgk~F~~~~~L~~H 228 (581)
+|..| +..|.....|..|+...++...- ..+.+.....+..+++..-...+.|. |++.|.....|..|
T Consensus 1 ~C~~C-------~~~f~~~~~l~~H~~~~H~~~~~----~~~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~~l~~H 69 (100)
T PF12756_consen 1 QCLFC-------DESFSSVDDLLQHMKKKHGFDIP----DQKYLVDPNRLLNYLRKKVKESFRCPYCNKTFRSREALQEH 69 (100)
T ss_dssp -----------------------------------------------------------SSEEBSSSS-EESSHHHHHHH
T ss_pred Ccccc-------ccccccccccccccccccccccc----cccccccccccccccccccCCCCCCCccCCCCcCHHHHHHH
Confidence 47777 99999999999999877754211 12223344555555554333479999 99999999999999
Q ss_pred Hhhhh
Q 008017 229 RAFCD 233 (581)
Q Consensus 229 ~~~h~ 233 (581)
++.++
T Consensus 70 m~~~~ 74 (100)
T PF12756_consen 70 MRSKH 74 (100)
T ss_dssp HHHTT
T ss_pred HcCcc
Confidence 98653
No 37
>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=96.26 E-value=0.0027 Score=39.60 Aligned_cols=24 Identities=8% Similarity=-0.067 Sum_probs=20.4
Q ss_pred ccCCcccccccChhHHHHHHhhcc
Q 008017 65 INFSLFNFIFFQFWGLIDFVLFES 88 (581)
Q Consensus 65 ~~C~~C~k~F~~~~~L~~H~~~h~ 88 (581)
|.|.+|++.|.++..|..|++.|+
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 689999999999999999999874
No 38
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.12 E-value=0.0077 Score=68.12 Aligned_cols=12 Identities=8% Similarity=-0.034 Sum_probs=8.0
Q ss_pred CccCCccccccc
Q 008017 64 GINFSLFNFIFF 75 (581)
Q Consensus 64 ~~~C~~C~k~F~ 75 (581)
.+.|.+|++.|.
T Consensus 99 ~~~C~~C~~~~~ 110 (669)
T KOG2231|consen 99 HHSCHICDRRFR 110 (669)
T ss_pred hhhcCccccchh
Confidence 456777777764
No 39
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=95.73 E-value=0.006 Score=39.69 Aligned_cols=26 Identities=8% Similarity=-0.062 Sum_probs=23.6
Q ss_pred CccCCcccccccChhHHHHHHhhccC
Q 008017 64 GINFSLFNFIFFQFWGLIDFVLFESD 89 (581)
Q Consensus 64 ~~~C~~C~k~F~~~~~L~~H~~~h~~ 89 (581)
.|+|..|++.|.+...|..|++.|..
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhcC
Confidence 48999999999999999999998753
No 40
>smart00355 ZnF_C2H2 zinc finger.
Probab=95.66 E-value=0.0077 Score=37.97 Aligned_cols=24 Identities=33% Similarity=0.667 Sum_probs=22.2
Q ss_pred cccCCCCCccCChHHHHHHHhhcC
Q 008017 108 FLCEICNKGFQRDQNLQLHRRGHN 131 (581)
Q Consensus 108 f~C~~Cgk~F~~~s~L~~H~r~H~ 131 (581)
|.|..|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 689999999999999999999774
No 41
>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=95.29 E-value=0.014 Score=43.92 Aligned_cols=39 Identities=18% Similarity=0.260 Sum_probs=22.8
Q ss_pred hhhhhcc-cCCccccccccCCccCChhHHHHHHhh-hCCCc
Q 008017 172 KKHFSRK-HGEKKWKCEKCSKKYAVQSDWKAHSKI-CGTRE 210 (581)
Q Consensus 172 ~~H~~~H-~gekp~~C~~Cgk~F~~~s~L~~H~~~-~gekp 210 (581)
..+.+.| ..+.|..|++|+..+....+|++|+.+ |+.||
T Consensus 12 ~~~~k~~~~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 12 TKKPKSKSQSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp ----CCCCTTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred hhHHHHhhccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 3444433 356788899999999999999999888 77765
No 42
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=95.23 E-value=0.011 Score=70.57 Aligned_cols=146 Identities=14% Similarity=0.148 Sum_probs=93.1
Q ss_pred cCCcccccccChhHHHHHHhhccCCChhhhhcCcccccCCCccccCCCCCccCChHHHHHHHhhcC---CCccccc----
Q 008017 66 NFSLFNFIFFQFWGLIDFVLFESDPDAEVIALSPKSLMATNRFLCEICNKGFQRDQNLQLHRRGHN---LPWKLKQ---- 138 (581)
Q Consensus 66 ~C~~C~k~F~~~~~L~~H~~~h~~~~~~~~~~~~k~~~~~k~f~C~~Cgk~F~~~s~L~~H~r~H~---~p~~~~~---- 138 (581)
.|..|+..+.+++.+..|+..-.- ..|-|+|+.|+..|+....|..|+|.-+ ..-.|+-
T Consensus 438 e~~~~e~~~~s~r~~~~~t~~L~S--------------~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~ 503 (1406)
T KOG1146|consen 438 ELTKAEPLLESKRSLEGQTVVLHS--------------FFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNH 503 (1406)
T ss_pred cccchhhhhhhhcccccceeeeec--------------ccccccCCccchhhhhHHHhhhcccccccccchhHhHhcccc
Confidence 455566666666666555553221 1367999999999999999999999743 1111211
Q ss_pred ----c-cccccccccccCCCCCccCCCCCCcccCchhhhhhhhc--ccC-------------------------------
Q 008017 139 ----R-TNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSR--KHG------------------------------- 180 (581)
Q Consensus 139 ----~-~~~~~~~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~--H~g------------------------------- 180 (581)
+ .....+.++|.|..| ...++.+.+|.+|+.. |..
T Consensus 504 ~~~arg~~~~~~~~p~~C~~C-------~~stttng~LsihlqS~~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~ 576 (1406)
T KOG1146|consen 504 PRLARGEVYRCPGKPYPCRAC-------NYSTTTNGNLSIHLQSDLHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLG 576 (1406)
T ss_pred ccccccccccCCCCcccceee-------eeeeecchHHHHHHHHHhhHHHHHHHHhccccchhhhhhhhcccCcccccCC
Confidence 0 111125578888888 8888888888888753 110
Q ss_pred ----------CccccccccCCccCChhHHHHHHhh-hCCCc-eeec-CCCccCChhHHHHHHhhh
Q 008017 181 ----------EKKWKCEKCSKKYAVQSDWKAHSKI-CGTRE-YKCD-CGKLFSRRDSFITHRAFC 232 (581)
Q Consensus 181 ----------ekp~~C~~Cgk~F~~~s~L~~H~~~-~gekp-y~C~-Cgk~F~~~~~L~~H~~~h 232 (581)
+-.|.|.+|+..-....+|+.|+.. +..++ ..|. |.-.+.....+.-+.+.+
T Consensus 577 ~~ags~~pktkP~~~C~vc~yetniarnlrihmtss~~s~~p~~~Lq~~it~~l~~~~~~~~~lp 641 (1406)
T KOG1146|consen 577 PSAGSSGPKTKPSWRCEVCSYETNIARNLRIHMTASPSSSPPSLVLQQNITSSLASLLGGQGRLP 641 (1406)
T ss_pred CCCCCCCCCCCCCcchhhhcchhhhhhccccccccCCCCCChHHHhhhcchhhccccccCcCCCC
Confidence 1237788888877777778888776 33333 6666 666666555555555444
No 43
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.89 E-value=0.023 Score=58.71 Aligned_cols=112 Identities=16% Similarity=0.281 Sum_probs=70.3
Q ss_pred ccccCC--CCCccCChHHHHHHHhhcCCCcccccccccccccccccCCCCCccCCCCCCcc------cCchhhhhhhhcc
Q 008017 107 RFLCEI--CNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRAL------GDLTGIKKHFSRK 178 (581)
Q Consensus 107 ~f~C~~--Cgk~F~~~s~L~~H~r~H~~p~~~~~~~~~~~~~kpy~C~~C~C~~~~~~k~F------~~~s~L~~H~~~H 178 (581)
.|.|+. |.........|+.|.+..+. .+.|.+|.- -.+.| -++..|..|...-
T Consensus 151 ~F~CP~skc~~~C~~~k~lk~H~K~~H~---------------~~~C~~C~~----nKk~F~~E~~lF~~~~Lr~H~~~G 211 (493)
T COG5236 151 SFKCPKSKCHRRCGSLKELKKHYKAQHG---------------FVLCSECIG----NKKDFWNEIRLFRSSTLRDHKNGG 211 (493)
T ss_pred HhcCCchhhhhhhhhHHHHHHHHHhhcC---------------cEEhHhhhc----CcccCccceeeeecccccccccCC
Confidence 588876 77777778899999877542 234544411 12222 2345566665543
Q ss_pred cCC---c-cccccccCCccCChhHHHHHHhhhCCCceeec-CC----CccCChhHHHHHHhhhhhhhh
Q 008017 179 HGE---K-KWKCEKCSKKYAVQSDWKAHSKICGTREYKCD-CG----KLFSRRDSFITHRAFCDVLAE 237 (581)
Q Consensus 179 ~ge---k-p~~C~~Cgk~F~~~s~L~~H~~~~gekpy~C~-Cg----k~F~~~~~L~~H~~~h~~~~~ 237 (581)
..+ | .-.|..|.+.|..-+.|.+|+|.-.|+-|.|+ -+ .=|....+|.+|-+.-|++|.
T Consensus 212 ~~e~GFKGHP~C~FC~~~FYdDDEL~~HcR~~HE~ChICD~v~p~~~QYFK~Y~~Le~HF~~~hy~ct 279 (493)
T COG5236 212 LEEEGFKGHPLCIFCKIYFYDDDELRRHCRLRHEACHICDMVGPIRYQYFKSYEDLEAHFRNAHYCCT 279 (493)
T ss_pred ccccCcCCCchhhhccceecChHHHHHHHHhhhhhhhhhhccCccchhhhhCHHHHHHHhhcCceEEE
Confidence 322 2 12588888888888888888887556666665 32 237777788888777666554
No 44
>smart00355 ZnF_C2H2 zinc finger.
Probab=94.71 E-value=0.023 Score=35.67 Aligned_cols=24 Identities=8% Similarity=-0.049 Sum_probs=22.1
Q ss_pred ccCCcccccccChhHHHHHHhhcc
Q 008017 65 INFSLFNFIFFQFWGLIDFVLFES 88 (581)
Q Consensus 65 ~~C~~C~k~F~~~~~L~~H~~~h~ 88 (581)
|.|..|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 689999999999999999999764
No 45
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=94.68 E-value=0.016 Score=36.90 Aligned_cols=23 Identities=43% Similarity=0.996 Sum_probs=21.3
Q ss_pred cccCCCCCccCChHHHHHHHhhc
Q 008017 108 FLCEICNKGFQRDQNLQLHRRGH 130 (581)
Q Consensus 108 f~C~~Cgk~F~~~s~L~~H~r~H 130 (581)
|.|++|++.|.+...|+.|++.+
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s~ 23 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRSK 23 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTTH
T ss_pred CCCCCCCCCcCCHHHHHHHHCcC
Confidence 68999999999999999999865
No 46
>PRK04860 hypothetical protein; Provisional
Probab=94.37 E-value=0.015 Score=55.10 Aligned_cols=35 Identities=26% Similarity=0.780 Sum_probs=18.8
Q ss_pred cccccccCCccCChhHHHHHHhh-hCCCceeec-CCCccCC
Q 008017 183 KWKCEKCSKKYAVQSDWKAHSKI-CGTREYKCD-CGKLFSR 221 (581)
Q Consensus 183 p~~C~~Cgk~F~~~s~L~~H~~~-~gekpy~C~-Cgk~F~~ 221 (581)
+|.|. |++ ....+++|.++ .++++|.|. |+..|..
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~ 155 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVF 155 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEE
Confidence 45555 554 44445555555 555555555 5555543
No 47
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=94.30 E-value=0.015 Score=62.09 Aligned_cols=107 Identities=20% Similarity=0.247 Sum_probs=74.9
Q ss_pred CccccCCCCCccCChHHHHHHHh--hcCCCccccccccccccc--ccccCC--CCCccCCCCCCcccCchhhhhhhhccc
Q 008017 106 NRFLCEICNKGFQRDQNLQLHRR--GHNLPWKLKQRTNKVERK--KVYVCP--EPTCVHHDPSRALGDLTGIKKHFSRKH 179 (581)
Q Consensus 106 k~f~C~~Cgk~F~~~s~L~~H~r--~H~~p~~~~~~~~~~~~~--kpy~C~--~C~C~~~~~~k~F~~~s~L~~H~~~H~ 179 (581)
.++.|..|.+.|.....|.+|.+ .|. ++ +++.|+ .| ++.|.+...+..|...|.
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~-------------~~~~~~~~~p~~~~-------~~~~~~~~~~~~~~~~~~ 347 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHS-------------GESLKPFSCPYSLC-------GKLFSRNDALKRHILLHT 347 (467)
T ss_pred cCCCCccccCCccccccccccccccccc-------------cccCCceeeeccCC-------CccccccccccCCccccc
Confidence 47899999999999999999999 787 77 899999 67 999999999999999999
Q ss_pred CCccccccc--cCCccCChhHH----HHH-Hhh-hCCCceeec---CCCccCChhHHHHHHhhh
Q 008017 180 GEKKWKCEK--CSKKYAVQSDW----KAH-SKI-CGTREYKCD---CGKLFSRRDSFITHRAFC 232 (581)
Q Consensus 180 gekp~~C~~--Cgk~F~~~s~L----~~H-~~~-~gekpy~C~---Cgk~F~~~~~L~~H~~~h 232 (581)
+.++++|.. |.+.+.....- ..+ ... ...+.+.|. |-..+.+...+..|...+
T Consensus 348 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 411 (467)
T COG5048 348 SISPAKEKLLNSSSKFSPLLNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITH 411 (467)
T ss_pred CCCccccccccCccccccccCCCCccchhhccCccCCccccccccchhhhhccccccccccccc
Confidence 888877754 55554443331 111 111 444555553 555555555555554433
No 48
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=94.17 E-value=0.016 Score=57.02 Aligned_cols=46 Identities=26% Similarity=0.257 Sum_probs=39.2
Q ss_pred cCCcccccccChhHHHHHHhhccCCChhhhhcCcccccCCCccccCCCCCccCChHHHHHHH-hhc
Q 008017 66 NFSLFNFIFFQFWGLIDFVLFESDPDAEVIALSPKSLMATNRFLCEICNKGFQRDQNLQLHR-RGH 130 (581)
Q Consensus 66 ~C~~C~k~F~~~~~L~~H~~~h~~~~~~~~~~~~k~~~~~k~f~C~~Cgk~F~~~s~L~~H~-r~H 130 (581)
=|..|++.|...+.|+.|.+. |-|+|.+|.|...+--.|..|. .+|
T Consensus 12 wcwycnrefddekiliqhqka-------------------khfkchichkkl~sgpglsihcmqvh 58 (341)
T KOG2893|consen 12 WCWYCNREFDDEKILIQHQKA-------------------KHFKCHICHKKLFSGPGLSIHCMQVH 58 (341)
T ss_pred eeeecccccchhhhhhhhhhh-------------------ccceeeeehhhhccCCCceeehhhhh
Confidence 399999999999999999883 4599999999888888888884 455
No 49
>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=93.89 E-value=0.05 Score=41.01 Aligned_cols=28 Identities=21% Similarity=0.418 Sum_probs=20.8
Q ss_pred CCCccccCCCCCccCChHHHHHHHhhcC
Q 008017 104 ATNRFLCEICNKGFQRDQNLQLHRRGHN 131 (581)
Q Consensus 104 ~~k~f~C~~Cgk~F~~~s~L~~H~r~H~ 131 (581)
.+.+-.|++|+..+....+|++|+.+++
T Consensus 21 S~~PatCP~C~a~~~~srnLrRHle~~H 48 (54)
T PF09237_consen 21 SEQPATCPICGAVIRQSRNLRRHLEIRH 48 (54)
T ss_dssp TS--EE-TTT--EESSHHHHHHHHHHHT
T ss_pred cCCCCCCCcchhhccchhhHHHHHHHHh
Confidence 4678999999999999999999998766
No 50
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=93.43 E-value=0.043 Score=34.90 Aligned_cols=23 Identities=13% Similarity=-0.031 Sum_probs=21.2
Q ss_pred ccCCcccccccChhHHHHHHhhc
Q 008017 65 INFSLFNFIFFQFWGLIDFVLFE 87 (581)
Q Consensus 65 ~~C~~C~k~F~~~~~L~~H~~~h 87 (581)
|.|.+|++.|.+...|..|++.+
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 68999999999999999999854
No 51
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=93.34 E-value=0.24 Score=52.40 Aligned_cols=160 Identities=17% Similarity=0.123 Sum_probs=94.5
Q ss_pred CCccCCcccccccChhHHHHHHhh--ccCC-----------Chhhh-----hcC---cc-cccCCCccccCCCCCccCCh
Q 008017 63 PGINFSLFNFIFFQFWGLIDFVLF--ESDP-----------DAEVI-----ALS---PK-SLMATNRFLCEICNKGFQRD 120 (581)
Q Consensus 63 ~~~~C~~C~k~F~~~~~L~~H~~~--h~~~-----------~~~~~-----~~~---~k-~~~~~k~f~C~~Cgk~F~~~ 120 (581)
..|+|.-|...|..-..-+.|++. |.-. ..+.. ... .+ .-..+-++.|.+|.|.|...
T Consensus 2 t~ftC~tC~v~F~~ad~Qr~HyKSdWHRYNLKRkVA~lPPItaE~F~~k~~s~~~~~~~~~e~~~~~~~c~~c~k~~~s~ 81 (390)
T KOG2785|consen 2 TGFTCNTCNVEFDDADEQRAHYKSDWHRYNLKRKVASLPPITAEEFNEKVLSDDSEKEENLEEAESVVYCEACNKSFASP 81 (390)
T ss_pred CcceeeceeeeeccHHHHHHHhhhhHHHhhHHhHhhcCCCcCHHHHhHHHhhhhhhhhhhhhhcccceehHHhhccccCh
Confidence 368999999999999999999986 3310 00000 000 00 01234578999999999999
Q ss_pred HHHHHHHhh--cCCCcccccccc----ccccccccc-------------CCCCCccCCCCCCcccCchhhhhhhhc----
Q 008017 121 QNLQLHRRG--HNLPWKLKQRTN----KVERKKVYV-------------CPEPTCVHHDPSRALGDLTGIKKHFSR---- 177 (581)
Q Consensus 121 s~L~~H~r~--H~~p~~~~~~~~----~~~~~kpy~-------------C~~C~C~~~~~~k~F~~~s~L~~H~~~---- 177 (581)
.....|+.. |.. ......+ .....+.+. |..+ ...+........+...
T Consensus 82 ~a~~~hl~Sk~h~~--~~~~~~r~~e~d~a~~~q~~~~~p~~l~~~~e~e~~~-------~E~~~~~d~~~e~~~dd~~E 152 (390)
T KOG2785|consen 82 KAHENHLKSKKHVE--NLSNHQRSEEGDSAKISQLPSRRPSNLQNKGESELKW-------YEVDSDEDSSEEEEEDDEEE 152 (390)
T ss_pred hhHHHHHHHhhcch--hhhhhhccccccchhhhhccccCccccccCCCcccch-------hhcccccccchhhccCcchh
Confidence 999999753 320 0000000 000011111 2222 2222221222222211
Q ss_pred --------ccCCccccccccCCccCChhHHHHHHhh-hCC-----------------------Cceeec-CC---CccCC
Q 008017 178 --------KHGEKKWKCEKCSKKYAVQSDWKAHSKI-CGT-----------------------REYKCD-CG---KLFSR 221 (581)
Q Consensus 178 --------H~gekp~~C~~Cgk~F~~~s~L~~H~~~-~ge-----------------------kpy~C~-Cg---k~F~~ 221 (581)
.-.+-|-.|-.|++.|.....-..||.. ||- .-|.|- |. +.|.+
T Consensus 153 di~~d~~~e~e~~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~s 232 (390)
T KOG2785|consen 153 DIEEDGDDEDELIPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSS 232 (390)
T ss_pred hhhhccchhcccCCcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccc
Confidence 1112356789999999999999999987 632 237788 98 99999
Q ss_pred hhHHHHHHhh
Q 008017 222 RDSFITHRAF 231 (581)
Q Consensus 222 ~~~L~~H~~~ 231 (581)
....+.||.-
T Consensus 233 leavr~HM~~ 242 (390)
T KOG2785|consen 233 LEAVRAHMRD 242 (390)
T ss_pred cHHHHHHHhh
Confidence 9999999963
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=93.15 E-value=0.034 Score=36.33 Aligned_cols=23 Identities=30% Similarity=0.816 Sum_probs=21.0
Q ss_pred cccCCCCCccCChHHHHHHHhhc
Q 008017 108 FLCEICNKGFQRDQNLQLHRRGH 130 (581)
Q Consensus 108 f~C~~Cgk~F~~~s~L~~H~r~H 130 (581)
|.|..|++.|.+...|..|+++.
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 53
>PRK04860 hypothetical protein; Provisional
Probab=93.12 E-value=0.051 Score=51.49 Aligned_cols=39 Identities=21% Similarity=0.385 Sum_probs=33.2
Q ss_pred CccccCCCCCccCChHHHHHHHhhcCCCcccccccccccccccccCCCCCccCCCCCCcccCc
Q 008017 106 NRFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDL 168 (581)
Q Consensus 106 k~f~C~~Cgk~F~~~s~L~~H~r~H~~p~~~~~~~~~~~~~kpy~C~~C~C~~~~~~k~F~~~ 168 (581)
-+|.|. |++ ....+++|.++|. ++++|.|..| +..|...
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~-------------g~~~YrC~~C-------~~~l~~~ 156 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVR-------------GEAVYRCRRC-------GETLVFK 156 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhc-------------CCccEECCCC-------CceeEEe
Confidence 469998 998 6788999999998 8999999999 7776544
No 54
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=91.75 E-value=0.1 Score=32.95 Aligned_cols=23 Identities=4% Similarity=-0.168 Sum_probs=19.1
Q ss_pred ccCCcccccccChhHHHHHHhhcc
Q 008017 65 INFSLFNFIFFQFWGLIDFVLFES 88 (581)
Q Consensus 65 ~~C~~C~k~F~~~~~L~~H~~~h~ 88 (581)
|.|..|+.... +..|.+|++.++
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 68999999998 999999999875
No 55
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=91.04 E-value=0.14 Score=61.64 Aligned_cols=97 Identities=19% Similarity=0.261 Sum_probs=74.0
Q ss_pred CCCCCCCccCCcccccccChhHHHHHHhhccCCChhhhhcCcccccCCCccccCCCCCccCChHHHHHHHhhcCCCcccc
Q 008017 58 SLPGNPGINFSLFNFIFFQFWGLIDFVLFESDPDAEVIALSPKSLMATNRFLCEICNKGFQRDQNLQLHRRGHNLPWKLK 137 (581)
Q Consensus 58 ~~~~~~~~~C~~C~k~F~~~~~L~~H~~~h~~~~~~~~~~~~k~~~~~k~f~C~~Cgk~F~~~s~L~~H~r~H~~p~~~~ 137 (581)
-.+..-.+.|.+|.+.|.-...+. |+-. +.+|.|..|...|.....|..|.+.-
T Consensus 1254 ~~~~sGe~~c~~~~~~~~~~~~~~-~l~~------------------~~~~~~~~~~~~~~~~~~l~~~~~k~------- 1307 (1406)
T KOG1146|consen 1254 ELPASGEGECGAVDELLTPSFGIS-TLDV------------------THRYLCRQCKMAFDGEAPLTAHQRKF------- 1307 (1406)
T ss_pred cCcCCCcchhhhccccccCcccee-eccc------------------chhHHHHHHHhhhcchhHHHHHHHHH-------
Confidence 345556788999999998887776 5542 45699999999999999999887321
Q ss_pred cccccccccccccCCCCCccCCCCCCcccCchhhhhhhhcccCCccccccccCCccCChhHHHHHHhh
Q 008017 138 QRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAHSKI 205 (581)
Q Consensus 138 ~~~~~~~~~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~gekp~~C~~Cgk~F~~~s~L~~H~~~ 205 (581)
.+.|.....+.-|+..+..-+.| |..|...|.....|..|+++
T Consensus 1308 ------------------------~~~~~~~~~~~~~~l~~~d~~~~-c~~c~~~~~~~~alqihm~~ 1350 (1406)
T KOG1146|consen 1308 ------------------------CFAGRGSGGSMPPPLRVPDCTYH-CLACEVLLSGREALQIHMRS 1350 (1406)
T ss_pred ------------------------HhccCccccCCCCcccCcccccc-chHHHhhcchhHHHHHHHHH
Confidence 34555556666677777776777 88888888888888888888
No 56
>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=90.77 E-value=0.11 Score=33.93 Aligned_cols=23 Identities=9% Similarity=-0.145 Sum_probs=20.8
Q ss_pred CccCCcccccccChhHHHHHHhh
Q 008017 64 GINFSLFNFIFFQFWGLIDFVLF 86 (581)
Q Consensus 64 ~~~C~~C~k~F~~~~~L~~H~~~ 86 (581)
.|.|..|++.|.+...|..|++.
T Consensus 1 q~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 1 QFYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp -CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCCcccCCCCcCCHHHHHHHHcc
Confidence 37899999999999999999985
No 57
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=89.98 E-value=0.28 Score=51.03 Aligned_cols=132 Identities=20% Similarity=0.271 Sum_probs=84.6
Q ss_pred CccCC--cccccccChhHHHHHHhhccCCChhhhhcCcccccCCCccccCCCC---CccC------ChHHHHHHHhhcCC
Q 008017 64 GINFS--LFNFIFFQFWGLIDFVLFESDPDAEVIALSPKSLMATNRFLCEICN---KGFQ------RDQNLQLHRRGHNL 132 (581)
Q Consensus 64 ~~~C~--~C~k~F~~~~~L~~H~~~h~~~~~~~~~~~~k~~~~~k~f~C~~Cg---k~F~------~~s~L~~H~r~H~~ 132 (581)
.|.|+ .|.........|+.|.+..+. .+.|.+|- +.|. +...|+.|...-.
T Consensus 151 ~F~CP~skc~~~C~~~k~lk~H~K~~H~-----------------~~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~- 212 (493)
T COG5236 151 SFKCPKSKCHRRCGSLKELKKHYKAQHG-----------------FVLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGL- 212 (493)
T ss_pred HhcCCchhhhhhhhhHHHHHHHHHhhcC-----------------cEEhHhhhcCcccCccceeeeecccccccccCCc-
Confidence 35565 466666667889999987664 35566653 3333 3345555543221
Q ss_pred Ccccccccccccc-cccccCCCCCccCCCCCCcccCchhhhhhhhcccCCccccccccC----CccCChhHHHHHHhhhC
Q 008017 133 PWKLKQRTNKVER-KKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCS----KKYAVQSDWKAHSKICG 207 (581)
Q Consensus 133 p~~~~~~~~~~~~-~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~gekp~~C~~Cg----k~F~~~s~L~~H~~~~g 207 (581)
...| +.--.|..| ...|-+-..|.+|+|..+ |+-|.|+.-+ .-|+.-..|.+|.+.
T Consensus 213 ---------~e~GFKGHP~C~FC-------~~~FYdDDEL~~HcR~~H-E~ChICD~v~p~~~QYFK~Y~~Le~HF~~-- 273 (493)
T COG5236 213 ---------EEEGFKGHPLCIFC-------KIYFYDDDELRRHCRLRH-EACHICDMVGPIRYQYFKSYEDLEAHFRN-- 273 (493)
T ss_pred ---------cccCcCCCchhhhc-------cceecChHHHHHHHHhhh-hhhhhhhccCccchhhhhCHHHHHHHhhc--
Confidence 0001 123479998 899999999999998766 3334444333 248888899999876
Q ss_pred CCceeec---CC----CccCChhHHHHHHhhhh
Q 008017 208 TREYKCD---CG----KLFSRRDSFITHRAFCD 233 (581)
Q Consensus 208 ekpy~C~---Cg----k~F~~~~~L~~H~~~h~ 233 (581)
.-|.|. |. ..|.....|..|+..-|
T Consensus 274 -~hy~ct~qtc~~~k~~vf~~~~el~~h~~~~h 305 (493)
T COG5236 274 -AHYCCTFQTCRVGKCYVFPYHTELLEHLTRFH 305 (493)
T ss_pred -CceEEEEEEEecCcEEEeccHHHHHHHHHHHh
Confidence 227774 63 46888889999985433
No 58
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=89.84 E-value=0.26 Score=31.01 Aligned_cols=22 Identities=27% Similarity=0.495 Sum_probs=12.2
Q ss_pred eeec-CCCccCChhHHHHHHhhhh
Q 008017 211 YKCD-CGKLFSRRDSFITHRAFCD 233 (581)
Q Consensus 211 y~C~-Cgk~F~~~~~L~~H~~~h~ 233 (581)
|+|. |..... +..|.+|++.+|
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 5566 666665 666666666554
No 59
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=89.54 E-value=0.11 Score=50.18 Aligned_cols=81 Identities=21% Similarity=0.468 Sum_probs=66.9
Q ss_pred ccccccCCCCCccCCCCCCcccCchhhhhhhhcccCCccccccccCCccCChhHHHHHHhh-h----------CCCceee
Q 008017 145 RKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAHSKI-C----------GTREYKC 213 (581)
Q Consensus 145 ~~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~gekp~~C~~Cgk~F~~~s~L~~H~~~-~----------gekpy~C 213 (581)
....|.|.+-|| -+.|.....+..|..+-++. .|.+|.+.|.+..-|..|+.. | |...|.|
T Consensus 76 ~~~~~~cqvagc-----~~~~d~lD~~E~hY~~~h~~---sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~C 147 (253)
T KOG4173|consen 76 RVPAFACQVAGC-----CQVFDALDDYEHHYHTLHGN---SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQC 147 (253)
T ss_pred ccccccccccch-----HHHHhhhhhHHHhhhhcccc---hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHH
Confidence 456789999988 89999999889888765553 799999999999999999865 4 4557999
Q ss_pred c---CCCccCChhHHHHHHhhhh
Q 008017 214 D---CGKLFSRRDSFITHRAFCD 233 (581)
Q Consensus 214 ~---Cgk~F~~~~~L~~H~~~h~ 233 (581)
- |+..|.+...-++|+-.-|
T Consensus 148 lvEgCt~KFkT~r~RkdH~I~~H 170 (253)
T KOG4173|consen 148 LVEGCTEKFKTSRDRKDHMIRMH 170 (253)
T ss_pred HHHhhhhhhhhhhhhhhHHHHhc
Confidence 4 9999999999999985433
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=87.33 E-value=0.42 Score=32.76 Aligned_cols=24 Identities=29% Similarity=0.811 Sum_probs=21.3
Q ss_pred ccccCCCCCccCChHHHHHHHhhc
Q 008017 107 RFLCEICNKGFQRDQNLQLHRRGH 130 (581)
Q Consensus 107 ~f~C~~Cgk~F~~~s~L~~H~r~H 130 (581)
+|.|++|++.|.....+..|++..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~gk 26 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKGK 26 (35)
T ss_pred CeEccccCCccCCHHHHHHHHChH
Confidence 588999999999999999998643
No 61
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=86.53 E-value=0.82 Score=47.63 Aligned_cols=160 Identities=16% Similarity=0.228 Sum_probs=84.3
Q ss_pred CCccCCcccccccC-hhHHHHHHhhccC-----CChhhhhcCccccc--CCCccccCCCCCccCChHHHHHHHhh--cCC
Q 008017 63 PGINFSLFNFIFFQ-FWGLIDFVLFESD-----PDAEVIALSPKSLM--ATNRFLCEICNKGFQRDQNLQLHRRG--HNL 132 (581)
Q Consensus 63 ~~~~C~~C~k~F~~-~~~L~~H~~~h~~-----~~~~~~~~~~k~~~--~~k~f~C~~Cgk~F~~~s~L~~H~r~--H~~ 132 (581)
..-.|-.|...+.- +.....|+..-|. ++.-+..-..-.|. .-.++.|-.|.|.|+.+..|+.|||. |.+
T Consensus 143 fslqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r~~CLyCekifrdkntLkeHMrkK~Hrr 222 (423)
T KOG2482|consen 143 FSLQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLERLRCLYCEKIFRDKNTLKEHMRKKRHRR 222 (423)
T ss_pred eeeEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhhheeeeeccccCCcHHHHHHHHhccCcc
Confidence 45679999988864 4556677665332 11110000000011 12468999999999999999999975 321
Q ss_pred CcccccccccccccccccCCCCCccCCCCCCcccC-chhhhhhhh----cc---------cCCcc--ccccccCCccCCh
Q 008017 133 PWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGD-LTGIKKHFS----RK---------HGEKK--WKCEKCSKKYAVQ 196 (581)
Q Consensus 133 p~~~~~~~~~~~~~kpy~C~~C~C~~~~~~k~F~~-~s~L~~H~~----~H---------~gekp--~~C~~Cgk~F~~~ 196 (581)
...+.+. -.+-|.-.+-.- +++... ...+.+-.. .+ .+..+ .+|-.|...+-+.
T Consensus 223 ---inPknre--YDkfyiINY~ev-----~ks~t~~~~e~dret~~d~~E~D~~wsDw~ed~a~a~~v~CLfC~~~~en~ 292 (423)
T KOG2482|consen 223 ---INPKNRE--YDKFYIINYLEV-----GKSWTIVHSEDDRETNEDINETDDTWSDWNEDDAEALSVVCLFCTNFYENP 292 (423)
T ss_pred ---cCCCccc--cceEEEEeHhhc-----CCccchhhhhhhhhhhccccccccchhhhhcCCCCccceEEEeeccchhhH
Confidence 0000000 011121111100 111110 011100000 00 01122 5888888888888
Q ss_pred hHHHHHHhh-hC---------------------------CCceeec-CCCccCChhHHHHHHhhh
Q 008017 197 SDWKAHSKI-CG---------------------------TREYKCD-CGKLFSRRDSFITHRAFC 232 (581)
Q Consensus 197 s~L~~H~~~-~g---------------------------ekpy~C~-Cgk~F~~~~~L~~H~~~h 232 (581)
..|..||++ |. .+.-.|- |...|-..-.|..|+.-+
T Consensus 293 ~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~e~ 357 (423)
T KOG2482|consen 293 VFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMVED 357 (423)
T ss_pred HHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhcccc
Confidence 888888887 51 1123466 889999999999998643
No 62
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=84.76 E-value=0.74 Score=29.64 Aligned_cols=19 Identities=26% Similarity=0.676 Sum_probs=10.5
Q ss_pred cccccCCccCChhHHHHHHh
Q 008017 185 KCEKCSKKYAVQSDWKAHSK 204 (581)
Q Consensus 185 ~C~~Cgk~F~~~s~L~~H~~ 204 (581)
.|+.||+.| ..+.|.+|++
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHH
Confidence 455566665 4455555554
No 63
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=83.65 E-value=1 Score=47.03 Aligned_cols=69 Identities=12% Similarity=0.066 Sum_probs=46.2
Q ss_pred CCccCCcccccccChhHHHHHHhhccCCChh-----------------------hhhcC-------cccc---------c
Q 008017 63 PGINFSLFNFIFFQFWGLIDFVLFESDPDAE-----------------------VIALS-------PKSL---------M 103 (581)
Q Consensus 63 ~~~~C~~C~k~F~~~~~L~~H~~~h~~~~~~-----------------------~~~~~-------~k~~---------~ 103 (581)
.++.|-.|.+.|..+..|+.|||.-...+.. +.... ...+ .
T Consensus 194 ~r~~CLyCekifrdkntLkeHMrkK~HrrinPknreYDkfyiINY~ev~ks~t~~~~e~dret~~d~~E~D~~wsDw~ed 273 (423)
T KOG2482|consen 194 ERLRCLYCEKIFRDKNTLKEHMRKKRHRRINPKNREYDKFYIINYLEVGKSWTIVHSEDDRETNEDINETDDTWSDWNED 273 (423)
T ss_pred hhheeeeeccccCCcHHHHHHHHhccCcccCCCccccceEEEEeHhhcCCccchhhhhhhhhhhccccccccchhhhhcC
Confidence 4678999999999999999999973311100 00000 0000 0
Q ss_pred CCCc--cccCCCCCccCChHHHHHHHhhcC
Q 008017 104 ATNR--FLCEICNKGFQRDQNLQLHRRGHN 131 (581)
Q Consensus 104 ~~k~--f~C~~Cgk~F~~~s~L~~H~r~H~ 131 (581)
...+ .+|-.|.+.+.....|..||++-+
T Consensus 274 ~a~a~~v~CLfC~~~~en~~~l~eHmk~vH 303 (423)
T KOG2482|consen 274 DAEALSVVCLFCTNFYENPVFLFEHMKIVH 303 (423)
T ss_pred CCCccceEEEeeccchhhHHHHHHHHHHHH
Confidence 0112 589999999999999999998754
No 64
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=82.99 E-value=1.1 Score=28.77 Aligned_cols=22 Identities=9% Similarity=-0.135 Sum_probs=18.8
Q ss_pred CccCCcccccccChhHHHHHHhh
Q 008017 64 GINFSLFNFIFFQFWGLIDFVLF 86 (581)
Q Consensus 64 ~~~C~~C~k~F~~~~~L~~H~~~ 86 (581)
...|..|++.| ....|..|++.
T Consensus 2 l~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 2 LVPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CCcCCCCCCEE-CHHHHHHHHHh
Confidence 35799999999 88889999864
No 65
>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=82.94 E-value=0.87 Score=31.15 Aligned_cols=23 Identities=22% Similarity=0.416 Sum_probs=16.7
Q ss_pred cccccccCCccCChhHHHHHHhh
Q 008017 183 KWKCEKCSKKYAVQSDWKAHSKI 205 (581)
Q Consensus 183 p~~C~~Cgk~F~~~s~L~~H~~~ 205 (581)
+|.|++|++.|.....+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 46677777777777777777654
No 66
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=81.82 E-value=1.7 Score=46.11 Aligned_cols=138 Identities=9% Similarity=0.022 Sum_probs=78.9
Q ss_pred CCCCCccCCcccccccChhHHHHHHhhccCCChhhhhc--CcccccCCCcc-------------ccCCCCCccCChHHHH
Q 008017 60 PGNPGINFSLFNFIFFQFWGLIDFVLFESDPDAEVIAL--SPKSLMATNRF-------------LCEICNKGFQRDQNLQ 124 (581)
Q Consensus 60 ~~~~~~~C~~C~k~F~~~~~L~~H~~~h~~~~~~~~~~--~~k~~~~~k~f-------------~C~~Cgk~F~~~s~L~ 124 (581)
..+..+.|..|.+.|.+......|++.-.......... ........+.+ .|..|-..+.......
T Consensus 64 ~~~~~~~c~~c~k~~~s~~a~~~hl~Sk~h~~~~~~~~r~~e~d~a~~~q~~~~~p~~l~~~~e~e~~~~E~~~~~d~~~ 143 (390)
T KOG2785|consen 64 EAESVVYCEACNKSFASPKAHENHLKSKKHVENLSNHQRSEEGDSAKISQLPSRRPSNLQNKGESELKWYEVDSDEDSSE 143 (390)
T ss_pred hcccceehHHhhccccChhhHHHHHHHhhcchhhhhhhccccccchhhhhccccCccccccCCCcccchhhcccccccch
Confidence 45668999999999999999999998633211110000 00000001111 1333333333322222
Q ss_pred HHHhhcCCCcccccccccccccccccCCCCCccCCCCCCcccCchhhhhhhhcccCC-----------------------
Q 008017 125 LHRRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGE----------------------- 181 (581)
Q Consensus 125 ~H~r~H~~p~~~~~~~~~~~~~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~ge----------------------- 181 (581)
.+...-. ..............-|-.|-.| ++.+.....-.+||..+|+-
T Consensus 144 e~~~dd~-~Edi~~d~~~e~e~~Pt~CLfC-------~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~ 215 (390)
T KOG2785|consen 144 EEEEDDE-EEDIEEDGDDEDELIPTDCLFC-------DKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVG 215 (390)
T ss_pred hhccCcc-hhhhhhccchhcccCCcceeec-------CCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhc
Confidence 2221100 0000000011112345678888 89999999999999998862
Q ss_pred ccccccccC---CccCChhHHHHHHhh
Q 008017 182 KKWKCEKCS---KKYAVQSDWKAHSKI 205 (581)
Q Consensus 182 kp~~C~~Cg---k~F~~~s~L~~H~~~ 205 (581)
.-+.|-.|. +.|......+.||..
T Consensus 216 ~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 216 IGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred cCceEEEeccccCcccccHHHHHHHhh
Confidence 347899998 999999999999986
No 67
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=79.61 E-value=0.44 Score=47.16 Aligned_cols=41 Identities=27% Similarity=0.407 Sum_probs=30.6
Q ss_pred CCCCCccCCCCCCcccCchhhhhhhhcccCCccccccccCCccCChhHHHHH
Q 008017 151 CPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAH 202 (581)
Q Consensus 151 C~~C~C~~~~~~k~F~~~s~L~~H~~~H~gekp~~C~~Cgk~F~~~s~L~~H 202 (581)
|.+| ++.|.+..-|..|.+. |.|+|.+|.|....--.|..|
T Consensus 13 cwyc-------nrefddekiliqhqka----khfkchichkkl~sgpglsih 53 (341)
T KOG2893|consen 13 CWYC-------NREFDDEKILIQHQKA----KHFKCHICHKKLFSGPGLSIH 53 (341)
T ss_pred eeec-------ccccchhhhhhhhhhh----ccceeeeehhhhccCCCceee
Confidence 7777 8888888888888765 348888888776665556555
No 68
>KOG1883 consensus Cofactor required for Sp1 transcriptional activation, subunit 3 [Transcription]
Probab=77.77 E-value=1.6 Score=52.00 Aligned_cols=21 Identities=14% Similarity=0.107 Sum_probs=8.3
Q ss_pred ccccchhhHHHhhHHhhhhhc
Q 008017 272 HQLQSQGLQALQLQAVKIEDN 292 (581)
Q Consensus 272 ~q~QqQqqQqqqqqqqqqqQq 292 (581)
++++++|+|+.|||+++++||
T Consensus 1430 q~q~t~q~q~~Qqq~~~~~qq 1450 (1517)
T KOG1883|consen 1430 QMQDTSQHQTIQQQSNHPTQQ 1450 (1517)
T ss_pred hhhhhhHHHHHHHHhcchHHH
Confidence 333334444444443333333
No 69
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=74.70 E-value=1.1 Score=43.56 Aligned_cols=79 Identities=22% Similarity=0.409 Sum_probs=62.1
Q ss_pred CCCccccCC--CCCccCChHHHHHHHhhcCCCcccccccccccccccccCCCCCccCCCCCCcccCchhhhhhhhccc--
Q 008017 104 ATNRFLCEI--CNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKH-- 179 (581)
Q Consensus 104 ~~k~f~C~~--Cgk~F~~~s~L~~H~r~H~~p~~~~~~~~~~~~~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~-- 179 (581)
..+.|.|.+ |-..|.....+..|..+-+ + -.|.+| .|.|.+..-|..|+..-|
T Consensus 76 ~~~~~~cqvagc~~~~d~lD~~E~hY~~~h-------------~---~sCs~C-------~r~~Pt~hLLd~HI~E~HDs 132 (253)
T KOG4173|consen 76 RVPAFACQVAGCCQVFDALDDYEHHYHTLH-------------G---NSCSFC-------KRAFPTGHLLDAHILEWHDS 132 (253)
T ss_pred ccccccccccchHHHHhhhhhHHHhhhhcc-------------c---chhHHH-------HHhCCchhhhhHHHHHHHHH
Confidence 356799998 8888888887777764433 2 278888 999999999999987544
Q ss_pred --------CCcccccc--ccCCccCChhHHHHHHhh
Q 008017 180 --------GEKKWKCE--KCSKKYAVQSDWKAHSKI 205 (581)
Q Consensus 180 --------gekp~~C~--~Cgk~F~~~s~L~~H~~~ 205 (581)
|..-|.|- .|+..|++...-++|+-.
T Consensus 133 ~Fqa~veRG~dMy~ClvEgCt~KFkT~r~RkdH~I~ 168 (253)
T KOG4173|consen 133 LFQALVERGQDMYQCLVEGCTEKFKTSRDRKDHMIR 168 (253)
T ss_pred HHHHHHHcCccHHHHHHHhhhhhhhhhhhhhhHHHH
Confidence 33458994 599999999999999876
No 70
>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=73.72 E-value=2.3 Score=37.61 Aligned_cols=34 Identities=12% Similarity=0.297 Sum_probs=27.1
Q ss_pred CCCCccCCcccccccChhHHHHHHhhccCCChhhhhcCcccccCCCccccCCCCCccCCh
Q 008017 61 GNPGINFSLFNFIFFQFWGLIDFVLFESDPDAEVIALSPKSLMATNRFLCEICNKGFQRD 120 (581)
Q Consensus 61 ~~~~~~C~~C~k~F~~~~~L~~H~~~h~~~~~~~~~~~~k~~~~~k~f~C~~Cgk~F~~~ 120 (581)
.+....|..||++|+... +.|.+|+.||..|.-.
T Consensus 6 lGtKR~Cp~CG~kFYDLn--------------------------k~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 6 LGTKRTCPSCGAKFYDLN--------------------------KDPIVCPKCGTEFPPE 39 (108)
T ss_pred cCCcccCCCCcchhccCC--------------------------CCCccCCCCCCccCcc
Confidence 345678999999998642 3578899999999876
No 71
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=72.26 E-value=2.7 Score=42.26 Aligned_cols=45 Identities=27% Similarity=0.644 Sum_probs=31.1
Q ss_pred ccccccCCccCChhHHHHHHhhhCCCceeec-CCCccCChhHHHHHHh
Q 008017 184 WKCEKCSKKYAVQSDWKAHSKICGTREYKCD-CGKLFSRRDSFITHRA 230 (581)
Q Consensus 184 ~~C~~Cgk~F~~~s~L~~H~~~~gekpy~C~-Cgk~F~~~~~L~~H~~ 230 (581)
|.|.+||....- ..+.+|+..+...-|.|. |++.|-+ .++..|..
T Consensus 4 FtCnvCgEsvKK-p~vekH~srCrn~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 4 FTCNVCGESVKK-PQVEKHMSRCRNAYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred Eehhhhhhhccc-cchHHHHHhccCCeeEEeeccccccc-chhhhhhh
Confidence 677888776543 456668777444778887 8888877 66677764
No 72
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=69.10 E-value=6.9 Score=34.82 Aligned_cols=48 Identities=15% Similarity=0.353 Sum_probs=29.2
Q ss_pred cccccCCccCChhHHHHHHhhhCCCceeec-CCCccCChhHHHHHHhhhh
Q 008017 185 KCEKCSKKYAVQSDWKAHSKICGTREYKCD-CGKLFSRRDSFITHRAFCD 233 (581)
Q Consensus 185 ~C~~Cgk~F~~~s~L~~H~~~~gekpy~C~-Cgk~F~~~~~L~~H~~~h~ 233 (581)
.|--|.+.|........- .......|+|. |...|-..-+...|..+|.
T Consensus 57 ~C~~C~~~f~~~~~~~~~-~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 57 FCFGCQGPFPKPPVSPFD-ELKDSHRYVCAVCKNVFCVDCDVFVHESLHC 105 (112)
T ss_pred cccCcCCCCCCccccccc-ccccccceeCCCCCCccccccchhhhhhccC
Confidence 377777777654311100 01234568888 8888877777777776664
No 73
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=68.58 E-value=2.3 Score=32.79 Aligned_cols=33 Identities=15% Similarity=0.085 Sum_probs=28.2
Q ss_pred CCCCCCCCccCCcccccccChhHHHHHHhhccC
Q 008017 57 RSLPGNPGINFSLFNFIFFQFWGLIDFVLFESD 89 (581)
Q Consensus 57 r~~~~~~~~~C~~C~k~F~~~~~L~~H~~~h~~ 89 (581)
+...++.-+.|+-|+..|.+...+.+|....+.
T Consensus 10 ~~RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 10 RDRDGEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred eccCCceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 445678889999999999999999999987553
No 74
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=68.38 E-value=1.4 Score=43.88 Aligned_cols=52 Identities=15% Similarity=0.136 Sum_probs=34.9
Q ss_pred CCccCCcccccccChhHHHHHHhh-ccCCChhhhhcCcccccCCC-----ccccCCCCCccCCh
Q 008017 63 PGINFSLFNFIFFQFWGLIDFVLF-ESDPDAEVIALSPKSLMATN-----RFLCEICNKGFQRD 120 (581)
Q Consensus 63 ~~~~C~~C~k~F~~~~~L~~H~~~-h~~~~~~~~~~~~k~~~~~k-----~f~C~~Cgk~F~~~ 120 (581)
+.+.|+.|++.|..+.......+. ..+.+.. + ...+.+ ...|+.||..|...
T Consensus 4 k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~-----~-~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKVRSGKIRVIRRDSDFC-----P-RYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CceECCCCCCeeeeeEEEcCCceEeeecCCCc-----c-ccCCCCCeeeeEEECCCCCCccccc
Confidence 568999999999999888888875 3232211 0 011123 35899999887754
No 75
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=67.88 E-value=2.2 Score=32.82 Aligned_cols=27 Identities=22% Similarity=0.580 Sum_probs=16.3
Q ss_pred cCCccccccccCCccCChhHHHHHHhh
Q 008017 179 HGEKKWKCEKCSKKYAVQSDWKAHSKI 205 (581)
Q Consensus 179 ~gekp~~C~~Cgk~F~~~s~L~~H~~~ 205 (581)
.||--+.|+.|++.|....++.+|...
T Consensus 13 DGE~~lrCPRC~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 13 DGEEFLRCPRCGMVFRRRKDYIRHVNK 39 (65)
T ss_pred CCceeeeCCchhHHHHHhHHHHHHhhH
Confidence 345556666666666666666666555
No 76
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=66.11 E-value=1.7 Score=45.53 Aligned_cols=27 Identities=37% Similarity=0.767 Sum_probs=19.6
Q ss_pred cccccCCCCCccCCCCCCcccCchhhhhhhhc
Q 008017 146 KKVYVCPEPTCVHHDPSRALGDLTGIKKHFSR 177 (581)
Q Consensus 146 ~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~ 177 (581)
.++|+|++..| .+.++....|+.|...
T Consensus 347 ~~~~~~~vp~~-----~~~~~n~ng~~~~~~~ 373 (442)
T KOG4124|consen 347 DKPYKCPVPNC-----DKAYKNQNGLKYHKLH 373 (442)
T ss_pred cCCCCCCCCcc-----hhhcccCcceeecccc
Confidence 46788887766 7777777777777654
No 77
>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=65.01 E-value=4.2 Score=27.91 Aligned_cols=10 Identities=30% Similarity=1.076 Sum_probs=7.9
Q ss_pred ccccccccCC
Q 008017 182 KKWKCEKCSK 191 (581)
Q Consensus 182 kp~~C~~Cgk 191 (581)
.++.|++|+.
T Consensus 16 ~~~~CP~Cg~ 25 (33)
T cd00350 16 APWVCPVCGA 25 (33)
T ss_pred CCCcCcCCCC
Confidence 6788888875
No 78
>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=64.88 E-value=9.4 Score=33.49 Aligned_cols=23 Identities=22% Similarity=0.572 Sum_probs=21.2
Q ss_pred eee----c-CCCccCChhHHHHHHhhhh
Q 008017 211 YKC----D-CGKLFSRRDSFITHRAFCD 233 (581)
Q Consensus 211 y~C----~-Cgk~F~~~~~L~~H~~~h~ 233 (581)
|.| . |++.+.+...+.+|.+.+|
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~H 108 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEH 108 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhc
Confidence 899 7 9999999999999998765
No 79
>KOG4377 consensus Zn-finger protein [General function prediction only]
Probab=64.77 E-value=4.3 Score=43.46 Aligned_cols=147 Identities=20% Similarity=0.293 Sum_probs=78.5
Q ss_pred CccCC--cccccccChhHHHHHHhhccCCChhhhhcCcccccCCCccccC--CCCCccCChHHHHHHHhhcCCCcccccc
Q 008017 64 GINFS--LFNFIFFQFWGLIDFVLFESDPDAEVIALSPKSLMATNRFLCE--ICNKGFQRDQNLQLHRRGHNLPWKLKQR 139 (581)
Q Consensus 64 ~~~C~--~C~k~F~~~~~L~~H~~~h~~~~~~~~~~~~k~~~~~k~f~C~--~Cgk~F~~~s~L~~H~r~H~~p~~~~~~ 139 (581)
.|.|. .|+..+..+....+|.+.|...+...+. ..+.-...|-|- +|.| ..++...|-.-|+ +.
T Consensus 271 hyhcl~e~C~ykr~~k~DvirH~~~hkkrdnsL~d---gf~rfs~syhC~~~~C~k---sTsdV~~h~nFht------~~ 338 (480)
T KOG4377|consen 271 HYHCLNEYCFYKRGQKNDVIRHVEIHKKRDNSLID---GFHRFSNSYHCTGQICEK---STSDVLLHDNFHT------DK 338 (480)
T ss_pred hhcccCccccccccchhhhHHHHHHHhhccccccc---chhhcCccchhhhcccCc---ccccccccCcccc------cc
Confidence 34453 6888888888888898888754432221 111113346774 4888 4456666665554 11
Q ss_pred cccccccccccCCCCCccCCCCCCcccCchhhhhhhhcccCCc-----cccccccCCccCChhHHHHHHhhhCCCceeec
Q 008017 140 TNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEK-----KWKCEKCSKKYAVQSDWKAHSKICGTREYKCD 214 (581)
Q Consensus 140 ~~~~~~~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~gek-----p~~C~~Cgk~F~~~s~L~~H~~~~gekpy~C~ 214 (581)
.......--|.|.-|+| -..|+....-..|.+-+.++. -|+=..|-..--..+ ..-.-|.|.
T Consensus 339 ~n~GfrrthfhC~r~gC-----TdtfK~~khk~yh~kdda~~~dGfkkf~k~e~cay~gCkys--------~~cnhfhc~ 405 (480)
T KOG4377|consen 339 RNNGFRRTHFHCQRIGC-----TDTFKDSKHKPYHYKDDAGEIDGFKKFFKDENCAYTGCKYS--------GICNHFHCD 405 (480)
T ss_pred ccCceecceeEEeccCC-----ccccccccccccccCcchhhhhhhhhhhccccCCccCcccc--------cceeeeeec
Confidence 11111224578888866 566653332233333332221 122222211100000 011236785
Q ss_pred ---CCCccCChhHHHHHHhhhhhh
Q 008017 215 ---CGKLFSRRDSFITHRAFCDVL 235 (581)
Q Consensus 215 ---Cgk~F~~~~~L~~H~~~h~~~ 235 (581)
|+..|...+.+..|.+.|+..
T Consensus 406 r~Gc~~tl~s~sqm~shkrkheRq 429 (480)
T KOG4377|consen 406 RLGCEATLYSVSQMASHKRKHERQ 429 (480)
T ss_pred ccCCceEEEehhhhhhhhhhhhhh
Confidence 999999999999999999754
No 80
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=64.04 E-value=2.9 Score=43.83 Aligned_cols=31 Identities=10% Similarity=0.186 Sum_probs=18.8
Q ss_pred CccccccccCCccCChhHHHHHHhh-hCCCce
Q 008017 181 EKKWKCEKCSKKYAVQSDWKAHSKI-CGTREY 211 (581)
Q Consensus 181 ekp~~C~~Cgk~F~~~s~L~~H~~~-~gekpy 211 (581)
..-|.|++|++.=.+...|..|... |-+-.+
T Consensus 77 ~qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~ 108 (381)
T KOG1280|consen 77 PQSFTCPYCGIMGFTERQFGTHVLSQHPEAST 108 (381)
T ss_pred cccccCCcccccccchhHHHHHhhhcCcccCc
Confidence 3456677777666666666666665 555443
No 81
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=63.54 E-value=3.8 Score=34.61 Aligned_cols=34 Identities=35% Similarity=0.647 Sum_probs=22.0
Q ss_pred cccccCCCCCccCCCCCCcccCchhhhhhhhcccCCccccccccCCccCCh
Q 008017 146 KKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQ 196 (581)
Q Consensus 146 ~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~gekp~~C~~Cgk~F~~~ 196 (581)
...|.|+.| ++. .+.+.-.+ -|.|..|+..|+--
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 457889988 442 23344343 48899999888643
No 82
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=63.02 E-value=5.8 Score=44.64 Aligned_cols=28 Identities=18% Similarity=0.345 Sum_probs=24.5
Q ss_pred CCCccccCCCCCccCChHHHHHHHhhcC
Q 008017 104 ATNRFLCEICNKGFQRDQNLQLHRRGHN 131 (581)
Q Consensus 104 ~~k~f~C~~Cgk~F~~~s~L~~H~r~H~ 131 (581)
...+..|..||+.|.......+||..|.
T Consensus 415 ~~~pnqC~~CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 415 KDSPNQCKSCGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred cCCcchhcccccccccchhhhhHhhhhh
Confidence 3567899999999999999999988885
No 83
>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=61.61 E-value=2.9 Score=41.50 Aligned_cols=30 Identities=23% Similarity=0.452 Sum_probs=22.1
Q ss_pred CCccccccccCCccCChhHHHHHHhh-hCCC
Q 008017 180 GEKKWKCEKCSKKYAVQSDWKAHSKI-CGTR 209 (581)
Q Consensus 180 gekp~~C~~Cgk~F~~~s~L~~H~~~-~gek 209 (581)
.+..|.|..|+|.|+-...++.|+.. |.++
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 45679999999999999999999887 6554
No 84
>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=60.19 E-value=6.3 Score=28.59 Aligned_cols=25 Identities=24% Similarity=0.493 Sum_probs=17.0
Q ss_pred CCccccCCCCCccCCh----HHHHHHHhh
Q 008017 105 TNRFLCEICNKGFQRD----QNLQLHRRG 129 (581)
Q Consensus 105 ~k~f~C~~Cgk~F~~~----s~L~~H~r~ 129 (581)
.+..+|.+|++.+... ++|.+|++.
T Consensus 14 ~~~a~C~~C~~~~~~~~~~ts~l~~HL~~ 42 (45)
T PF02892_consen 14 KKKAKCKYCGKVIKYSSGGTSNLKRHLKK 42 (45)
T ss_dssp SS-EEETTTTEE-----SSTHHHHHHHHH
T ss_pred cCeEEeCCCCeEEeeCCCcHHHHHHhhhh
Confidence 5678999999999874 799999843
No 85
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=59.13 E-value=3.8 Score=41.25 Aligned_cols=48 Identities=23% Similarity=0.525 Sum_probs=38.8
Q ss_pred cccCCCCCccCCCCCCcccCchhhhhhhhcccCCccccccccCCccCChhHHHHHHhh
Q 008017 148 VYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAHSKI 205 (581)
Q Consensus 148 py~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~gekp~~C~~Cgk~F~~~s~L~~H~~~ 205 (581)
-|.|..| +.... +..+.+|+.+-++ .-|.|-.|++.|.+ ..++.|..-
T Consensus 3 ~FtCnvC-------gEsvK-Kp~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~kC 50 (276)
T KOG2186|consen 3 FFTCNVC-------GESVK-KPQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTKC 50 (276)
T ss_pred EEehhhh-------hhhcc-ccchHHHHHhccC-CeeEEeeccccccc-chhhhhhhh
Confidence 3789999 66554 5568889998888 67999999999999 778889765
No 86
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=58.68 E-value=2.6 Score=39.69 Aligned_cols=17 Identities=18% Similarity=0.566 Sum_probs=12.9
Q ss_pred cccccccCCccCChhHH
Q 008017 183 KWKCEKCSKKYAVQSDW 199 (581)
Q Consensus 183 p~~C~~Cgk~F~~~s~L 199 (581)
.|.|+.||++|.....+
T Consensus 28 ~~~c~~c~~~f~~~e~~ 44 (154)
T PRK00464 28 RRECLACGKRFTTFERV 44 (154)
T ss_pred eeeccccCCcceEeEec
Confidence 38888999888876554
No 87
>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=57.83 E-value=6.7 Score=28.43 Aligned_cols=25 Identities=40% Similarity=0.570 Sum_probs=12.0
Q ss_pred CCccccccccCCccCCh----hHHHHHHh
Q 008017 180 GEKKWKCEKCSKKYAVQ----SDWKAHSK 204 (581)
Q Consensus 180 gekp~~C~~Cgk~F~~~----s~L~~H~~ 204 (581)
++...+|..|++.+... +.|.+|++
T Consensus 13 ~~~~a~C~~C~~~~~~~~~~ts~l~~HL~ 41 (45)
T PF02892_consen 13 DKKKAKCKYCGKVIKYSSGGTSNLKRHLK 41 (45)
T ss_dssp CSS-EEETTTTEE-----SSTHHHHHHHH
T ss_pred CcCeEEeCCCCeEEeeCCCcHHHHHHhhh
Confidence 34456677777666553 55666653
No 88
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=56.35 E-value=7.6 Score=35.19 Aligned_cols=37 Identities=8% Similarity=0.081 Sum_probs=28.1
Q ss_pred CCCccCCcccccccChhHHHHHHhhccCCChhhhhcCcccccCCCccccCCCCCccCChHHHH
Q 008017 62 NPGINFSLFNFIFFQFWGLIDFVLFESDPDAEVIALSPKSLMATNRFLCEICNKGFQRDQNLQ 124 (581)
Q Consensus 62 ~~~~~C~~C~k~F~~~~~L~~H~~~h~~~~~~~~~~~~k~~~~~k~f~C~~Cgk~F~~~s~L~ 124 (581)
..+..|..|+++|+... +.|..|+.||..|.-...++
T Consensus 7 GtKr~Cp~cg~kFYDLn--------------------------k~p~vcP~cg~~~~~~~~~~ 43 (129)
T TIGR02300 7 GTKRICPNTGSKFYDLN--------------------------RRPAVSPYTGEQFPPEEALK 43 (129)
T ss_pred CccccCCCcCccccccC--------------------------CCCccCCCcCCccCcchhhc
Confidence 44678999999997532 45789999999997664444
No 89
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=56.13 E-value=5.1 Score=39.83 Aligned_cols=44 Identities=16% Similarity=0.316 Sum_probs=29.0
Q ss_pred cccccCCCCCccCCCCCCcccCchhhhhhhhcc---c-------CCcc-----ccccccCCccCCh
Q 008017 146 KKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRK---H-------GEKK-----WKCEKCSKKYAVQ 196 (581)
Q Consensus 146 ~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~H---~-------gekp-----~~C~~Cgk~F~~~ 196 (581)
+|.+.|++| ++.|..+..+....+.- . +..| +.|+.||.+|...
T Consensus 3 ~k~~~CPvC-------~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 3 DKKITCPVC-------GKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CCceECCCC-------CCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 466789999 88888876665555431 1 2222 6788898876644
No 90
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=53.09 E-value=9.3 Score=44.74 Aligned_cols=13 Identities=15% Similarity=0.483 Sum_probs=9.2
Q ss_pred CCccccccccCCc
Q 008017 180 GEKKWKCEKCSKK 192 (581)
Q Consensus 180 gekp~~C~~Cgk~ 192 (581)
...|..|+.||-.
T Consensus 472 ~~~p~~Cp~Cgs~ 484 (730)
T COG1198 472 EPIPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCCCC
Confidence 4567788888764
No 91
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=52.81 E-value=6.6 Score=37.02 Aligned_cols=16 Identities=38% Similarity=0.806 Sum_probs=11.0
Q ss_pred Cceeec-CCCccCChhH
Q 008017 209 REYKCD-CGKLFSRRDS 224 (581)
Q Consensus 209 kpy~C~-Cgk~F~~~~~ 224 (581)
+.|.|. ||++|.....
T Consensus 27 ~~~~c~~c~~~f~~~e~ 43 (154)
T PRK00464 27 RRRECLACGKRFTTFER 43 (154)
T ss_pred eeeeccccCCcceEeEe
Confidence 347888 8888876543
No 92
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=52.16 E-value=9.4 Score=28.63 Aligned_cols=25 Identities=40% Similarity=0.735 Sum_probs=20.4
Q ss_pred CccccCCCCCccCCh-----HHHHHHHh-hc
Q 008017 106 NRFLCEICNKGFQRD-----QNLQLHRR-GH 130 (581)
Q Consensus 106 k~f~C~~Cgk~F~~~-----s~L~~H~r-~H 130 (581)
..-.|..|++.+... ++|.+|++ .|
T Consensus 17 ~~a~C~~C~~~l~~~~~~gTs~L~rHl~~~h 47 (50)
T smart00614 17 QRAKCKYCGKKLSRSSKGGTSNLRRHLRRKH 47 (50)
T ss_pred eEEEecCCCCEeeeCCCCCcHHHHHHHHhHC
Confidence 346799999999776 69999998 55
No 93
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=52.11 E-value=5.7 Score=45.51 Aligned_cols=29 Identities=7% Similarity=-0.040 Sum_probs=25.9
Q ss_pred CCCccCCcccccccChhHHHHHHhhccCC
Q 008017 62 NPGINFSLFNFIFFQFWGLIDFVLFESDP 90 (581)
Q Consensus 62 ~~~~~C~~C~k~F~~~~~L~~H~~~h~~~ 90 (581)
...|.|.+|+|.|...+.++.||+.|.-.
T Consensus 790 ~giFpCreC~kvF~KiKSrNAHMK~Hr~q 818 (907)
T KOG4167|consen 790 TGIFPCRECGKVFFKIKSRNAHMKTHRQQ 818 (907)
T ss_pred CceeehHHHHHHHHHHhhhhHHHHHHHHH
Confidence 35789999999999999999999999753
No 94
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=51.98 E-value=5.8 Score=45.48 Aligned_cols=27 Identities=30% Similarity=0.512 Sum_probs=24.8
Q ss_pred CCccccCCCCCccCChHHHHHHHhhcC
Q 008017 105 TNRFLCEICNKGFQRDQNLQLHRRGHN 131 (581)
Q Consensus 105 ~k~f~C~~Cgk~F~~~s~L~~H~r~H~ 131 (581)
..-|.|.+|+|.|.....+..||++|.
T Consensus 790 ~giFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 790 TGIFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred CceeehHHHHHHHHHHhhhhHHHHHHH
Confidence 456999999999999999999999996
No 95
>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=51.37 E-value=10 Score=33.55 Aligned_cols=15 Identities=20% Similarity=0.647 Sum_probs=10.0
Q ss_pred ccccccccCCccCCh
Q 008017 182 KKWKCEKCSKKYAVQ 196 (581)
Q Consensus 182 kp~~C~~Cgk~F~~~ 196 (581)
.|..|++||..|.-.
T Consensus 25 ~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 25 DPIVCPKCGTEFPPE 39 (108)
T ss_pred CCccCCCCCCccCcc
Confidence 566777777766554
No 96
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=50.48 E-value=5.6 Score=41.80 Aligned_cols=25 Identities=20% Similarity=0.719 Sum_probs=21.0
Q ss_pred CCccccCC--CCCccCChHHHHHHHhh
Q 008017 105 TNRFLCEI--CNKGFQRDQNLQLHRRG 129 (581)
Q Consensus 105 ~k~f~C~~--Cgk~F~~~s~L~~H~r~ 129 (581)
.++|+|.+ |.+.+.....|+.|...
T Consensus 347 ~~~~~~~vp~~~~~~~n~ng~~~~~~~ 373 (442)
T KOG4124|consen 347 DKPYKCPVPNCDKAYKNQNGLKYHKLH 373 (442)
T ss_pred cCCCCCCCCcchhhcccCcceeecccc
Confidence 57899976 99999999999888643
No 97
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=50.41 E-value=9.4 Score=36.40 Aligned_cols=26 Identities=35% Similarity=0.643 Sum_probs=20.5
Q ss_pred cccccCCCCCccCCCCCCcccCchhhhhhhhcccCCccccccccCC
Q 008017 146 KKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSK 191 (581)
Q Consensus 146 ~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~gekp~~C~~Cgk 191 (581)
.+.|+|++| |. +|.++-|.+|++||-
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 65 356788999999983
No 98
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=48.35 E-value=13 Score=40.37 Aligned_cols=36 Identities=28% Similarity=0.631 Sum_probs=25.9
Q ss_pred CCccccccccCCccCChhHHHHHHhhhCCCceeec-CCC
Q 008017 180 GEKKWKCEKCSKKYAVQSDWKAHSKICGTREYKCD-CGK 217 (581)
Q Consensus 180 gekp~~C~~Cgk~F~~~s~L~~H~~~~gekpy~C~-Cgk 217 (581)
...-|.|+.|.+.|+....+.- -....-.|.|. |+-
T Consensus 125 ~~~~Y~Cp~C~kkyt~Lea~~L--~~~~~~~F~C~~C~g 161 (436)
T KOG2593|consen 125 NVAGYVCPNCQKKYTSLEALQL--LDNETGEFHCENCGG 161 (436)
T ss_pred ccccccCCccccchhhhHHHHh--hcccCceEEEecCCC
Confidence 3456999999999988877642 12445679998 873
No 99
>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=48.22 E-value=14 Score=34.71 Aligned_cols=39 Identities=26% Similarity=0.434 Sum_probs=19.1
Q ss_pred CCccccccccCCcc------CChhHHHHHHhh--h-----------CCCceeec-CCCc
Q 008017 180 GEKKWKCEKCSKKY------AVQSDWKAHSKI--C-----------GTREYKCD-CGKL 218 (581)
Q Consensus 180 gekp~~C~~Cgk~F------~~~s~L~~H~~~--~-----------gekpy~C~-Cgk~ 218 (581)
.+-..+|..|+|.| +..+++..|+.. | |+..++|- ||-+
T Consensus 11 p~~vv~C~~c~kWFCNg~~~~s~SHIv~HLv~srh~ev~LH~~s~lgdt~leCy~Cg~~ 69 (152)
T PF09416_consen 11 PSCVVKCNTCNKWFCNGRGNTSGSHIVNHLVRSRHKEVSLHPDSPLGDTVLECYNCGSR 69 (152)
T ss_dssp CCCEEEETTTTEEEES--TTSSS-HHHHHHHHHT---EEE-TTSTT-S-B---TTT---
T ss_pred cccEeEcCCCCcEeecCCCCCcccHHHHHHHHccCCceeeCCCCCCCCcEEEEEecCCC
Confidence 34456788888777 355677788665 3 23457787 7643
No 100
>PF14353 CpXC: CpXC protein
Probab=44.81 E-value=1.8 Score=39.19 Aligned_cols=60 Identities=18% Similarity=0.116 Sum_probs=35.4
Q ss_pred ccCCcccccccChhHHHHHHhhccCCChhhhhcCcccccCCCccccCCCCCccCChHHHHHHHhhc
Q 008017 65 INFSLFNFIFFQFWGLIDFVLFESDPDAEVIALSPKSLMATNRFLCEICNKGFQRDQNLQLHRRGH 130 (581)
Q Consensus 65 ~~C~~C~k~F~~~~~L~~H~~~h~~~~~~~~~~~~k~~~~~k~f~C~~Cgk~F~~~s~L~~H~r~H 130 (581)
.+|+.|+..|............ +++.....+.. .-..|.|+.||+.|.-...+..|-..+
T Consensus 2 itCP~C~~~~~~~v~~~I~~~~--~p~l~e~il~g----~l~~~~CP~Cg~~~~~~~p~lY~D~~~ 61 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWTSINADE--DPELKEKILDG----SLFSFTCPSCGHKFRLEYPLLYHDPEK 61 (128)
T ss_pred cCCCCCCCeeEEEEEeEEcCcC--CHHHHHHHHcC----CcCEEECCCCCCceecCCCEEEEcCCC
Confidence 5799999999866443222111 11111000000 124699999999998888777776554
No 101
>PRK04023 DNA polymerase II large subunit; Validated
Probab=43.11 E-value=23 Score=42.50 Aligned_cols=12 Identities=33% Similarity=0.631 Sum_probs=8.3
Q ss_pred CCccccCCCCCc
Q 008017 105 TNRFLCEICNKG 116 (581)
Q Consensus 105 ~k~f~C~~Cgk~ 116 (581)
.....|..||+.
T Consensus 624 Vg~RfCpsCG~~ 635 (1121)
T PRK04023 624 IGRRKCPSCGKE 635 (1121)
T ss_pred ccCccCCCCCCc
Confidence 345678888876
No 102
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=42.28 E-value=81 Score=37.01 Aligned_cols=14 Identities=36% Similarity=0.674 Sum_probs=10.5
Q ss_pred ccccccCCCCcccccc
Q 008017 539 FLGLKTFPHSHRDFVN 554 (581)
Q Consensus 539 flg~~~~~~~~~~~~~ 554 (581)
||| .|-|+|.+|-+
T Consensus 707 flg--S~rmpyeeik~ 720 (1102)
T KOG1924|consen 707 FLG--SFRMPYEEIKN 720 (1102)
T ss_pred HHh--hccCCHHHHHH
Confidence 788 66678888754
No 103
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=41.37 E-value=19 Score=25.23 Aligned_cols=13 Identities=31% Similarity=0.991 Sum_probs=6.1
Q ss_pred cccccCCccCChh
Q 008017 185 KCEKCSKKYAVQS 197 (581)
Q Consensus 185 ~C~~Cgk~F~~~s 197 (581)
.|+.|+..|...+
T Consensus 4 ~Cp~C~~~y~i~d 16 (36)
T PF13717_consen 4 TCPNCQAKYEIDD 16 (36)
T ss_pred ECCCCCCEEeCCH
Confidence 3445555444443
No 104
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=40.69 E-value=2.4e+02 Score=29.61 Aligned_cols=28 Identities=11% Similarity=0.249 Sum_probs=23.6
Q ss_pred hCCCceeec----CCCccCChhHHHHHHhhhh
Q 008017 206 CGTREYKCD----CGKLFSRRDSFITHRAFCD 233 (581)
Q Consensus 206 ~gekpy~C~----Cgk~F~~~~~L~~H~~~h~ 233 (581)
..+..|.|. |.++|....+|..|+.-.|
T Consensus 140 ~~g~iFmC~~~~GC~RTyLsqrDlqAHInhrH 171 (389)
T KOG2932|consen 140 MMGGIFMCAAPHGCLRTYLSQRDLQAHINHRH 171 (389)
T ss_pred cccceEEeecchhHHHHHhhHHHHHHHhhhhh
Confidence 566789994 9999999999999986544
No 105
>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=40.67 E-value=19 Score=33.07 Aligned_cols=25 Identities=32% Similarity=0.681 Sum_probs=16.9
Q ss_pred CCCccccCCCCCccCChHHHHHHHhhcC
Q 008017 104 ATNRFLCEICNKGFQRDQNLQLHRRGHN 131 (581)
Q Consensus 104 ~~k~f~C~~Cgk~F~~~s~L~~H~r~H~ 131 (581)
.+....|-+|||.|+. |++|++.|+
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 4556789999999975 599999996
No 106
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=40.02 E-value=37 Score=29.73 Aligned_cols=33 Identities=15% Similarity=0.017 Sum_probs=28.6
Q ss_pred CCCCCCCCccC----CcccccccChhHHHHHHhhccC
Q 008017 57 RSLPGNPGINF----SLFNFIFFQFWGLIDFVLFESD 89 (581)
Q Consensus 57 r~~~~~~~~~C----~~C~k~F~~~~~L~~H~~~h~~ 89 (581)
..++.-.+|.| ..|+..+.+...+.+|++.+++
T Consensus 73 ~gLp~~~G~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 73 PGLPVYDGYRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CCCCCCCCeeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 35666689999 9999999999999999998763
No 107
>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=39.95 E-value=3.7 Score=42.69 Aligned_cols=34 Identities=21% Similarity=0.436 Sum_probs=13.5
Q ss_pred cccccccCCccCChhHHHHHHhhhCCCceeec-CC
Q 008017 183 KWKCEKCSKKYAVQSDWKAHSKICGTREYKCD-CG 216 (581)
Q Consensus 183 p~~C~~Cgk~F~~~s~L~~H~~~~gekpy~C~-Cg 216 (581)
..+|..||..-...-.+..-...-+.+-+.|+ |+
T Consensus 211 R~~Cp~Cg~~~~~~l~~~~~e~~~~~rve~C~~C~ 245 (290)
T PF04216_consen 211 RIKCPYCGNTDHEKLEYFTVEGEPAYRVEVCESCG 245 (290)
T ss_dssp TTS-TTT---SS-EEE--------SEEEEEETTTT
T ss_pred CCCCcCCCCCCCcceeeEecCCCCcEEEEECCccc
Confidence 35788888764433222111111345678888 86
No 108
>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=39.66 E-value=19 Score=24.93 Aligned_cols=10 Identities=30% Similarity=0.611 Sum_probs=7.4
Q ss_pred ccccccccCC
Q 008017 182 KKWKCEKCSK 191 (581)
Q Consensus 182 kp~~C~~Cgk 191 (581)
.|..|++|+.
T Consensus 17 ~p~~CP~Cg~ 26 (34)
T cd00729 17 APEKCPICGA 26 (34)
T ss_pred CCCcCcCCCC
Confidence 5678888875
No 109
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=37.96 E-value=28 Score=35.17 Aligned_cols=77 Identities=18% Similarity=0.397 Sum_probs=45.6
Q ss_pred ChHHHHHHHhhcCCCcccccccccccccccccCCCCCccCCCCCCcccCchhhhhhhhcccCCccccccccCCccCChhH
Q 008017 119 RDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSD 198 (581)
Q Consensus 119 ~~s~L~~H~r~H~~p~~~~~~~~~~~~~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~gekp~~C~~Cgk~F~~~s~ 198 (581)
+..+|+.+.+.+. .......+.|.|..| .... . .+.-.....-.|..|.+.|.--..
T Consensus 91 Te~Nlrm~d~a~~--------~~ip~~drqFaC~~C-------d~~W------w--Rrvp~rKeVSRCr~C~~rYDPVP~ 147 (278)
T PF15135_consen 91 TEENLRMFDDAQE--------NLIPSVDRQFACSSC-------DHMW------W--RRVPQRKEVSRCRKCRKRYDPVPC 147 (278)
T ss_pred hHHHHHHhhhhhh--------ccccccceeeecccc-------chHH------H--hccCcccccccccccccccCCCcc
Confidence 4567776665543 011114578999999 4322 1 122223344689999888764331
Q ss_pred HHHHHhhhCCCceeec-CCCccCCh
Q 008017 199 WKAHSKICGTREYKCD-CGKLFSRR 222 (581)
Q Consensus 199 L~~H~~~~gekpy~C~-Cgk~F~~~ 222 (581)
-+..|--.|.|. |+..|.-.
T Consensus 148 ----dkmwG~aef~C~~C~h~F~G~ 168 (278)
T PF15135_consen 148 ----DKMWGIAEFHCPKCRHNFRGF 168 (278)
T ss_pred ----ccccceeeeecccccccchhh
Confidence 122567789998 99999743
No 110
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=37.42 E-value=23 Score=27.86 Aligned_cols=9 Identities=33% Similarity=1.224 Sum_probs=4.7
Q ss_pred ccccccccC
Q 008017 182 KKWKCEKCS 190 (581)
Q Consensus 182 kp~~C~~Cg 190 (581)
.+|+|+.||
T Consensus 49 ~~Y~Cp~CG 57 (61)
T COG2888 49 NPYRCPKCG 57 (61)
T ss_pred CceECCCcC
Confidence 345555554
No 111
>PHA00626 hypothetical protein
Probab=36.97 E-value=21 Score=27.72 Aligned_cols=14 Identities=14% Similarity=0.468 Sum_probs=9.0
Q ss_pred ccccccccCCccCC
Q 008017 182 KKWKCEKCSKKYAV 195 (581)
Q Consensus 182 kp~~C~~Cgk~F~~ 195 (581)
..|+|+.||..|+.
T Consensus 22 nrYkCkdCGY~ft~ 35 (59)
T PHA00626 22 DDYVCCDCGYNDSK 35 (59)
T ss_pred cceEcCCCCCeech
Confidence 44777777776654
No 112
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=36.64 E-value=32 Score=31.95 Aligned_cols=12 Identities=42% Similarity=1.182 Sum_probs=5.9
Q ss_pred ccccccCCccCC
Q 008017 184 WKCEKCSKKYAV 195 (581)
Q Consensus 184 ~~C~~Cgk~F~~ 195 (581)
|.|+.|++.|..
T Consensus 100 Y~Cp~C~~~y~~ 111 (147)
T smart00531 100 YKCPNCQSKYTF 111 (147)
T ss_pred EECcCCCCEeeH
Confidence 455555554443
No 113
>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=35.01 E-value=27 Score=31.76 Aligned_cols=15 Identities=0% Similarity=0.051 Sum_probs=9.3
Q ss_pred ccccccccCCccCCh
Q 008017 182 KKWKCEKCSKKYAVQ 196 (581)
Q Consensus 182 kp~~C~~Cgk~F~~~ 196 (581)
.|..|++||..|...
T Consensus 25 ~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 25 RPAVSPYTGEQFPPE 39 (129)
T ss_pred CCccCCCcCCccCcc
Confidence 566677776666544
No 114
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=34.65 E-value=20 Score=38.95 Aligned_cols=40 Identities=18% Similarity=0.154 Sum_probs=28.6
Q ss_pred CCCCCCccCCcccccccChhHHHHHHhhccCCChhhhhcCcccccCCCccccCCCCCc
Q 008017 59 LPGNPGINFSLFNFIFFQFWGLIDFVLFESDPDAEVIALSPKSLMATNRFLCEICNKG 116 (581)
Q Consensus 59 ~~~~~~~~C~~C~k~F~~~~~L~~H~~~h~~~~~~~~~~~~k~~~~~k~f~C~~Cgk~ 116 (581)
......|.|+.|.+.|.....++.--. . .-.|.|..|+-.
T Consensus 123 ~t~~~~Y~Cp~C~kkyt~Lea~~L~~~---~---------------~~~F~C~~C~ge 162 (436)
T KOG2593|consen 123 DTNVAGYVCPNCQKKYTSLEALQLLDN---E---------------TGEFHCENCGGE 162 (436)
T ss_pred ccccccccCCccccchhhhHHHHhhcc---c---------------CceEEEecCCCc
Confidence 344568999999999998877665322 1 346999999753
No 115
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=34.43 E-value=19 Score=37.91 Aligned_cols=12 Identities=8% Similarity=0.036 Sum_probs=9.2
Q ss_pred ccccccCCCCCc
Q 008017 145 RKKVYVCPEPTC 156 (581)
Q Consensus 145 ~~kpy~C~~C~C 156 (581)
|.|-..|..|++
T Consensus 209 G~RyL~CslC~t 220 (309)
T PRK03564 209 GLRYLHCNLCES 220 (309)
T ss_pred CceEEEcCCCCC
Confidence 677888988854
No 116
>KOG0608 consensus Warts/lats-like serine threonine kinases [Cell cycle control, cell division, chromosome partitioning]
Probab=34.15 E-value=58 Score=37.60 Aligned_cols=37 Identities=11% Similarity=0.022 Sum_probs=17.4
Q ss_pred HHHhhHHhhhhhcccCCCCCCCcCCCCCcccCcccCC
Q 008017 280 QALQLQAVKIEDNNQQHHIPPWLACPSSIDLSSQLFS 316 (581)
Q Consensus 280 QqqqqqqqqqqQqqqq~~~pp~~~~~~~~~~~~~~~p 316 (581)
++.+++.++++||+++++..+...+.++.+......|
T Consensus 423 ~v~~~r~lrpe~Qta~~p~hp~~ipq~~~a~~~d~rp 459 (1034)
T KOG0608|consen 423 PVKSKRVLRPEQQTAQQPLHPRWIPQPSDANHPDPRP 459 (1034)
T ss_pred hhHHHHhhCcchhhhccccCccccCCccccCCCCccc
Confidence 3344444555555555554444444444444333334
No 117
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=33.80 E-value=44 Score=35.14 Aligned_cols=12 Identities=8% Similarity=-0.011 Sum_probs=9.0
Q ss_pred CCCCccCCcccc
Q 008017 61 GNPGINFSLFNF 72 (581)
Q Consensus 61 ~~~~~~C~~C~k 72 (581)
+...-.|+.||.
T Consensus 184 ~~~~~~CPvCGs 195 (309)
T PRK03564 184 GEQRQFCPVCGS 195 (309)
T ss_pred ccCCCCCCCCCC
Confidence 445678999987
No 118
>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=33.76 E-value=20 Score=26.91 Aligned_cols=30 Identities=17% Similarity=0.407 Sum_probs=17.2
Q ss_pred cccCCCCCccCCCCCCcccCchhhhhhhhcccCCccccccccCC
Q 008017 148 VYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSK 191 (581)
Q Consensus 148 py~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~gekp~~C~~Cgk 191 (581)
-|+|..| +..|.....+ +. +..-.|+.||.
T Consensus 5 ey~C~~C-------g~~fe~~~~~------~~-~~~~~CP~Cg~ 34 (52)
T TIGR02605 5 EYRCTAC-------GHRFEVLQKM------SD-DPLATCPECGG 34 (52)
T ss_pred EEEeCCC-------CCEeEEEEec------CC-CCCCCCCCCCC
Confidence 4778877 7766533211 11 34466888875
No 119
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=32.79 E-value=22 Score=26.87 Aligned_cols=9 Identities=22% Similarity=0.767 Sum_probs=4.7
Q ss_pred cccccccCC
Q 008017 183 KWKCEKCSK 191 (581)
Q Consensus 183 p~~C~~Cgk 191 (581)
...|+.||.
T Consensus 24 ~irCp~Cg~ 32 (49)
T COG1996 24 GIRCPYCGS 32 (49)
T ss_pred ceeCCCCCc
Confidence 345555554
No 120
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=32.36 E-value=27 Score=33.30 Aligned_cols=23 Identities=22% Similarity=0.550 Sum_probs=18.8
Q ss_pred ccccCCCCCccCChHHHHHHHhhcCCCcccccccccccccccccCCCCC
Q 008017 107 RFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPT 155 (581)
Q Consensus 107 ~f~C~~Cgk~F~~~s~L~~H~r~H~~p~~~~~~~~~~~~~kpy~C~~C~ 155 (581)
.|+|.+||..+ . ++-|-+||+||
T Consensus 134 ~~vC~vCGy~~-------------~-------------ge~P~~CPiCg 156 (166)
T COG1592 134 VWVCPVCGYTH-------------E-------------GEAPEVCPICG 156 (166)
T ss_pred EEEcCCCCCcc-------------c-------------CCCCCcCCCCC
Confidence 69999998753 2 68899999994
No 121
>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=32.29 E-value=22 Score=25.01 Aligned_cols=31 Identities=19% Similarity=0.450 Sum_probs=18.3
Q ss_pred cccCCCCCccCCCCCCcccCchhhhhhhhcccCCccccccccCCc
Q 008017 148 VYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKK 192 (581)
Q Consensus 148 py~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~gekp~~C~~Cgk~ 192 (581)
.|+|..| +..|....... . ...-.|+.||..
T Consensus 5 ~y~C~~C-------g~~fe~~~~~~------~-~~~~~CP~Cg~~ 35 (41)
T smart00834 5 EYRCEDC-------GHTFEVLQKIS------D-DPLATCPECGGD 35 (41)
T ss_pred EEEcCCC-------CCEEEEEEecC------C-CCCCCCCCCCCc
Confidence 4778887 77664332221 1 345678888864
No 122
>PRK14873 primosome assembly protein PriA; Provisional
Probab=32.12 E-value=28 Score=40.65 Aligned_cols=11 Identities=27% Similarity=1.301 Sum_probs=8.0
Q ss_pred ccccccccCCc
Q 008017 182 KKWKCEKCSKK 192 (581)
Q Consensus 182 kp~~C~~Cgk~ 192 (581)
.++.|+.||..
T Consensus 421 ~p~~Cp~Cgs~ 431 (665)
T PRK14873 421 PDWRCPRCGSD 431 (665)
T ss_pred cCccCCCCcCC
Confidence 46788888764
No 123
>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=31.70 E-value=36 Score=22.09 Aligned_cols=20 Identities=0% Similarity=-0.303 Sum_probs=16.9
Q ss_pred ccCCcccccccChhHHHHHHh
Q 008017 65 INFSLFNFIFFQFWGLIDFVL 85 (581)
Q Consensus 65 ~~C~~C~k~F~~~~~L~~H~~ 85 (581)
..|++|++.+ ....+.+|+.
T Consensus 2 v~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 2 VQCPVCFREV-PENLINSHLD 21 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHHH
Confidence 4699999999 6688888876
No 124
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=31.46 E-value=17 Score=29.83 Aligned_cols=38 Identities=16% Similarity=0.412 Sum_probs=20.7
Q ss_pred ccccccCCccCChhHHHHHHhhhCCCceeec---CCCccCCh
Q 008017 184 WKCEKCSKKYAVQSDWKAHSKICGTREYKCD---CGKLFSRR 222 (581)
Q Consensus 184 ~~C~~Cgk~F~~~s~L~~H~~~~gekpy~C~---Cgk~F~~~ 222 (581)
+.|+.||........-..+.. ..++-+.|. ||.+|...
T Consensus 2 m~CP~Cg~~a~irtSr~~s~~-~~~~Y~qC~N~eCg~tF~t~ 42 (72)
T PRK09678 2 FHCPLCQHAAHARTSRYITDT-TKERYHQCQNVNCSATFITY 42 (72)
T ss_pred ccCCCCCCccEEEEChhcChh-hheeeeecCCCCCCCEEEEE
Confidence 467777765433322211111 445667784 88888654
No 125
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=31.05 E-value=32 Score=26.12 Aligned_cols=15 Identities=7% Similarity=0.078 Sum_probs=11.9
Q ss_pred CccCCcccccccChh
Q 008017 64 GINFSLFNFIFFQFW 78 (581)
Q Consensus 64 ~~~C~~C~k~F~~~~ 78 (581)
.|.|..|+..|.-..
T Consensus 1 ~y~C~~CgyiYd~~~ 15 (50)
T cd00730 1 KYECRICGYIYDPAE 15 (50)
T ss_pred CcCCCCCCeEECCCC
Confidence 489999999887543
No 126
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=30.81 E-value=59 Score=34.48 Aligned_cols=27 Identities=7% Similarity=-0.284 Sum_probs=22.6
Q ss_pred CCCCCccCCcccccccChhHHHHHHhh
Q 008017 60 PGNPGINFSLFNFIFFQFWGLIDFVLF 86 (581)
Q Consensus 60 ~~~~~~~C~~C~k~F~~~~~L~~H~~~ 86 (581)
...+.+-|..|++.|.....+..|...
T Consensus 234 ~~~~~~YC~~C~r~f~~~~VFe~Hl~g 260 (470)
T COG5188 234 EWFPKVYCVKCGREFSRSKVFEYHLEG 260 (470)
T ss_pred hhccceeeHhhhhHhhhhHHHHHHHhh
Confidence 345678899999999999999999874
No 127
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=30.46 E-value=35 Score=31.29 Aligned_cols=22 Identities=27% Similarity=0.412 Sum_probs=19.5
Q ss_pred ccccCCCCCccCChHHHHHHHhhcC
Q 008017 107 RFLCEICNKGFQRDQNLQLHRRGHN 131 (581)
Q Consensus 107 ~f~C~~Cgk~F~~~s~L~~H~r~H~ 131 (581)
-..|-+|||.|+ .|++|+++|.
T Consensus 76 ~IicLEDGkkfK---SLKRHL~t~~ 97 (148)
T COG4957 76 YIICLEDGKKFK---SLKRHLTTHY 97 (148)
T ss_pred eEEEeccCcchH---HHHHHHhccc
Confidence 467999999995 7999999987
No 128
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=29.40 E-value=25 Score=28.83 Aligned_cols=21 Identities=19% Similarity=0.502 Sum_probs=15.8
Q ss_pred cCCcccccc--ccCCccCChhHH
Q 008017 179 HGEKKWKCE--KCSKKYAVQSDW 199 (581)
Q Consensus 179 ~gekp~~C~--~Cgk~F~~~s~L 199 (581)
..++-+.|. .||.+|.....+
T Consensus 23 ~~~~Y~qC~N~eCg~tF~t~es~ 45 (72)
T PRK09678 23 TKERYHQCQNVNCSATFITYESV 45 (72)
T ss_pred hheeeeecCCCCCCCEEEEEEEE
Confidence 456778997 899999876543
No 129
>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=29.10 E-value=31 Score=32.54 Aligned_cols=16 Identities=6% Similarity=0.395 Sum_probs=7.4
Q ss_pred ccccccCCccCChhHH
Q 008017 184 WKCEKCSKKYAVQSDW 199 (581)
Q Consensus 184 ~~C~~Cgk~F~~~s~L 199 (581)
|.|+.|+..|+.-..+
T Consensus 110 Y~Cp~c~~r~tf~eA~ 125 (158)
T TIGR00373 110 FICPNMCVRFTFNEAM 125 (158)
T ss_pred EECCCCCcEeeHHHHH
Confidence 4444444444444443
No 130
>PRK04023 DNA polymerase II large subunit; Validated
Probab=28.68 E-value=50 Score=39.82 Aligned_cols=7 Identities=29% Similarity=0.510 Sum_probs=3.5
Q ss_pred cccCCCC
Q 008017 148 VYVCPEP 154 (581)
Q Consensus 148 py~C~~C 154 (581)
...|+.|
T Consensus 626 ~RfCpsC 632 (1121)
T PRK04023 626 RRKCPSC 632 (1121)
T ss_pred CccCCCC
Confidence 3455555
No 131
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=28.59 E-value=32 Score=37.62 Aligned_cols=30 Identities=23% Similarity=0.627 Sum_probs=21.8
Q ss_pred ccccccCCccCChhHHHHHHhhhCCCceeec-CCCccCChh
Q 008017 184 WKCEKCSKKYAVQSDWKAHSKICGTREYKCD-CGKLFSRRD 223 (581)
Q Consensus 184 ~~C~~Cgk~F~~~s~L~~H~~~~gekpy~C~-Cgk~F~~~~ 223 (581)
=+|+.||.+ |+..|.+-|+|. ||+.+....
T Consensus 351 p~Cp~Cg~~----------m~S~G~~g~rC~kCg~~~~~~~ 381 (421)
T COG1571 351 PVCPRCGGR----------MKSAGRNGFRCKKCGTRARETL 381 (421)
T ss_pred CCCCccCCc----------hhhcCCCCcccccccccCCccc
Confidence 368888876 555566688998 998887643
No 132
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=28.55 E-value=36 Score=23.89 Aligned_cols=11 Identities=36% Similarity=1.011 Sum_probs=5.1
Q ss_pred cccccccCCcc
Q 008017 183 KWKCEKCSKKY 193 (581)
Q Consensus 183 p~~C~~Cgk~F 193 (581)
..+|..|+..|
T Consensus 25 ~vrC~~C~~~f 35 (37)
T PF13719_consen 25 KVRCPKCGHVF 35 (37)
T ss_pred EEECCCCCcEe
Confidence 34455554444
No 133
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=28.36 E-value=29 Score=33.52 Aligned_cols=29 Identities=17% Similarity=0.777 Sum_probs=15.1
Q ss_pred cccccccCCccCChhHHHHHHhhhCCCceeec-CCCcc
Q 008017 183 KWKCEKCSKKYAVQSDWKAHSKICGTREYKCD-CGKLF 219 (581)
Q Consensus 183 p~~C~~Cgk~F~~~s~L~~H~~~~gekpy~C~-Cgk~F 219 (581)
-|.|+.|++.|+....+. .-|.|+ ||...
T Consensus 117 ~Y~Cp~C~~rytf~eA~~--------~~F~Cp~Cg~~L 146 (178)
T PRK06266 117 FFFCPNCHIRFTFDEAME--------YGFRCPQCGEML 146 (178)
T ss_pred EEECCCCCcEEeHHHHhh--------cCCcCCCCCCCC
Confidence 355666665555554432 245665 65543
No 134
>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=28.33 E-value=33 Score=23.89 Aligned_cols=10 Identities=30% Similarity=0.963 Sum_probs=5.1
Q ss_pred ccccccCCcc
Q 008017 184 WKCEKCSKKY 193 (581)
Q Consensus 184 ~~C~~Cgk~F 193 (581)
..|+.|+..|
T Consensus 26 v~C~~C~~~~ 35 (38)
T TIGR02098 26 VRCGKCGHVW 35 (38)
T ss_pred EECCCCCCEE
Confidence 4555555544
No 135
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=28.12 E-value=33 Score=30.88 Aligned_cols=29 Identities=17% Similarity=0.082 Sum_probs=26.9
Q ss_pred CCCCCCCccCCcccccccChhHHHHHHhh
Q 008017 58 SLPGNPGINFSLFNFIFFQFWGLIDFVLF 86 (581)
Q Consensus 58 ~~~~~~~~~C~~C~k~F~~~~~L~~H~~~ 86 (581)
.+|+.-.|.|-+|.+-|.....|..|.+.
T Consensus 51 dlPG~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 51 DLPGGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCCCCceeehhhhhhhhcchHHHHHHHhc
Confidence 47888999999999999999999999986
No 136
>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=27.88 E-value=28 Score=36.58 Aligned_cols=12 Identities=8% Similarity=0.102 Sum_probs=8.9
Q ss_pred ccccccCCCCCc
Q 008017 145 RKKVYVCPEPTC 156 (581)
Q Consensus 145 ~~kpy~C~~C~C 156 (581)
|.|-..|..|++
T Consensus 207 G~RyL~CslC~t 218 (305)
T TIGR01562 207 GLRYLSCSLCAT 218 (305)
T ss_pred CceEEEcCCCCC
Confidence 677788888844
No 137
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=27.42 E-value=26 Score=33.78 Aligned_cols=35 Identities=11% Similarity=0.388 Sum_probs=25.9
Q ss_pred ccccccCCCCCccCCCCCCcccCchhhhhhhhcccCCccccccccCCccCC
Q 008017 145 RKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAV 195 (581)
Q Consensus 145 ~~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~gekp~~C~~Cgk~F~~ 195 (581)
...-|.|+.| ++.|+....+. .-|.|+.||.....
T Consensus 114 ~~~~Y~Cp~C-------~~rytf~eA~~---------~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 114 NNMFFFCPNC-------HIRFTFDEAME---------YGFRCPQCGEMLEE 148 (178)
T ss_pred CCCEEECCCC-------CcEEeHHHHhh---------cCCcCCCCCCCCee
Confidence 4567999999 77777666543 36999999986543
No 138
>PF15269 zf-C2H2_7: Zinc-finger
Probab=27.25 E-value=54 Score=24.26 Aligned_cols=25 Identities=8% Similarity=-0.023 Sum_probs=22.4
Q ss_pred CccCCcccccccChhHHHHHHhhcc
Q 008017 64 GINFSLFNFIFFQFWGLIDFVLFES 88 (581)
Q Consensus 64 ~~~C~~C~k~F~~~~~L~~H~~~h~ 88 (581)
.|+|-.|.++...++.|..||+...
T Consensus 20 ~ykcfqcpftc~~kshl~nhmky~l 44 (54)
T PF15269_consen 20 KYKCFQCPFTCNEKSHLFNHMKYSL 44 (54)
T ss_pred cceeecCCcccchHHHHHHHHHHHh
Confidence 6889999999999999999999643
No 139
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=27.13 E-value=18 Score=39.27 Aligned_cols=37 Identities=24% Similarity=0.579 Sum_probs=22.9
Q ss_pred ccccccCCccCChhHHHHHHhh------hCCCceeec-CCCccC
Q 008017 184 WKCEKCSKKYAVQSDWKAHSKI------CGTREYKCD-CGKLFS 220 (581)
Q Consensus 184 ~~C~~Cgk~F~~~s~L~~H~~~------~gekpy~C~-Cgk~F~ 220 (581)
=+|.+|++-..-..--..-+|+ -...=|+|+ |+...+
T Consensus 395 PrCs~C~~PI~P~~G~~etvRvvamdr~fHv~CY~CEDCg~~LS 438 (468)
T KOG1701|consen 395 PRCSVCGNPILPRDGKDETVRVVAMDRDFHVNCYKCEDCGLLLS 438 (468)
T ss_pred cchhhccCCccCCCCCcceEEEEEccccccccceehhhcCcccc
Confidence 4788888766544433333333 234568999 998776
No 140
>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=27.06 E-value=28 Score=32.86 Aligned_cols=34 Identities=12% Similarity=0.457 Sum_probs=26.1
Q ss_pred ccccccCCCCCccCCCCCCcccCchhhhhhhhcccCCccccccccCCccC
Q 008017 145 RKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYA 194 (581)
Q Consensus 145 ~~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~gekp~~C~~Cgk~F~ 194 (581)
...-|.|+.| +..|+....+. .-|.|+.||....
T Consensus 106 ~~~~Y~Cp~c-------~~r~tf~eA~~---------~~F~Cp~Cg~~L~ 139 (158)
T TIGR00373 106 NNMFFICPNM-------CVRFTFNEAME---------LNFTCPRCGAMLD 139 (158)
T ss_pred CCCeEECCCC-------CcEeeHHHHHH---------cCCcCCCCCCEee
Confidence 5677999999 77777766664 2599999997643
No 141
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=26.51 E-value=30 Score=32.13 Aligned_cols=39 Identities=15% Similarity=0.411 Sum_probs=26.4
Q ss_pred ccccccCCCCCccCCCCCCcccCchhhhhhhhcccCCccccccccCCccC
Q 008017 145 RKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYA 194 (581)
Q Consensus 145 ~~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~gekp~~C~~Cgk~F~ 194 (581)
...-|.|+.| +..|.....+.. ... +..|.|+.||....
T Consensus 96 ~~~~Y~Cp~C-------~~~y~~~ea~~~---~d~-~~~f~Cp~Cg~~l~ 134 (147)
T smart00531 96 NNAYYKCPNC-------QSKYTFLEANQL---LDM-DGTFTCPRCGEELE 134 (147)
T ss_pred CCcEEECcCC-------CCEeeHHHHHHh---cCC-CCcEECCCCCCEEE
Confidence 5678999999 888875544332 011 34499999998653
No 142
>KOG0696 consensus Serine/threonine protein kinase [Signal transduction mechanisms]
Probab=25.93 E-value=28 Score=38.02 Aligned_cols=58 Identities=21% Similarity=0.476 Sum_probs=38.7
Q ss_pred CCccccCCCCCccCChHHHHHHHhhcCCCcccccccccccccccccCCCCCccCCCCCCcccCchhhhhhh-hcccCCcc
Q 008017 105 TNRFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHF-SRKHGEKK 183 (581)
Q Consensus 105 ~k~f~C~~Cgk~F~~~s~L~~H~r~H~~p~~~~~~~~~~~~~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~-~~H~gekp 183 (581)
+.-|.|.+| .+..|.|.|. -..|.|+-- ++.+..-..-.+|. +.|+-.-|
T Consensus 71 KQGfQCqvC--------~fvvHkrChe--------------fVtF~CPGa-------dkg~dtDdpr~kHkf~~~tYssP 121 (683)
T KOG0696|consen 71 KQGFQCQVC--------CFVVHKRCHE--------------FVTFSCPGA-------DKGPDTDDPRSKHKFKIHTYSSP 121 (683)
T ss_pred cCceeeeEE--------eehhhhhhcc--------------eEEEECCCC-------CCCCCCCCcccccceeeeecCCC
Confidence 445777777 4567888883 566777755 67776666666663 45666667
Q ss_pred ccccccCC
Q 008017 184 WKCEKCSK 191 (581)
Q Consensus 184 ~~C~~Cgk 191 (581)
--|+.||.
T Consensus 122 TFCDhCGs 129 (683)
T KOG0696|consen 122 TFCDHCGS 129 (683)
T ss_pred chhhhHHH
Confidence 77888873
No 143
>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=25.88 E-value=49 Score=32.98 Aligned_cols=30 Identities=23% Similarity=0.418 Sum_probs=22.5
Q ss_pred CCCceeec-CCCccCChhHHHHHHhhhhhhh
Q 008017 207 GTREYKCD-CGKLFSRRDSFITHRAFCDVLA 236 (581)
Q Consensus 207 gekpy~C~-Cgk~F~~~~~L~~H~~~h~~~~ 236 (581)
.+..|.|. |+|.|.-..-.++|+...|...
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 55679999 9999999999999998766433
No 144
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=25.85 E-value=14 Score=32.16 Aligned_cols=41 Identities=7% Similarity=0.062 Sum_probs=25.8
Q ss_pred CCCCccCCcccccccChhHHHHHHhhccCCChhhhhcCcccccCCCccccCCCCCccCCh
Q 008017 61 GNPGINFSLFNFIFFQFWGLIDFVLFESDPDAEVIALSPKSLMATNRFLCEICNKGFQRD 120 (581)
Q Consensus 61 ~~~~~~C~~C~k~F~~~~~L~~H~~~h~~~~~~~~~~~~k~~~~~k~f~C~~Cgk~F~~~ 120 (581)
-.+.|+|..|+..-.....+.. ....--..|..||..|...
T Consensus 19 L~k~FtCp~Cghe~vs~ctvkk-------------------~~~~g~~~Cg~CGls~e~e 59 (104)
T COG4888 19 LPKTFTCPRCGHEKVSSCTVKK-------------------TVNIGTAVCGNCGLSFECE 59 (104)
T ss_pred CCceEecCccCCeeeeEEEEEe-------------------cCceeEEEcccCcceEEEe
Confidence 4678999999985544333111 1112346799999988654
No 145
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=25.30 E-value=1.2e+02 Score=27.02 Aligned_cols=87 Identities=14% Similarity=0.204 Sum_probs=52.1
Q ss_pred CCccccCCCCCccCChHHHHHHHhhcC----CCcccccccccccccccccCCCCCccCCCCCCcccCchhhhhhhhcccC
Q 008017 105 TNRFLCEICNKGFQRDQNLQLHRRGHN----LPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHG 180 (581)
Q Consensus 105 ~k~f~C~~Cgk~F~~~s~L~~H~r~H~----~p~~~~~~~~~~~~~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~g 180 (581)
+-|-+|++|+-......+|.|- -|+ .+|.-.... ...+...|--| .+.|.......+- .-..
T Consensus 13 ~LP~~CpiCgLtLVss~HLARS--yHHLfPl~~f~ev~~~---~~~~~~~C~~C-------~~~f~~~~~~~~~--~~~~ 78 (112)
T TIGR00622 13 ELPVECPICGLTLILSTHLARS--YHHLFPLKAFQEIPLE---EYNGSRFCFGC-------QGPFPKPPVSPFD--ELKD 78 (112)
T ss_pred CCCCcCCcCCCEEeccchHHHh--hhccCCCccccccccc---ccCCCCcccCc-------CCCCCCccccccc--cccc
Confidence 3577899999999888888865 243 222110000 11112347666 7878655321110 0223
Q ss_pred CccccccccCCccCChhHHHHHHhh
Q 008017 181 EKKWKCEKCSKKYAVQSDWKAHSKI 205 (581)
Q Consensus 181 ekp~~C~~Cgk~F~~~s~L~~H~~~ 205 (581)
...|.|+.|...|-..-+.-.|...
T Consensus 79 ~~~y~C~~C~~~FC~dCD~fiHe~L 103 (112)
T TIGR00622 79 SHRYVCAVCKNVFCVDCDVFVHESL 103 (112)
T ss_pred ccceeCCCCCCccccccchhhhhhc
Confidence 4569999999999888887777654
No 146
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=25.21 E-value=82 Score=33.19 Aligned_cols=24 Identities=21% Similarity=0.707 Sum_probs=18.6
Q ss_pred ceeec-CCCccCChhHHHHHHhhhh
Q 008017 210 EYKCD-CGKLFSRRDSFITHRAFCD 233 (581)
Q Consensus 210 py~C~-Cgk~F~~~~~L~~H~~~h~ 233 (581)
.|.|. |...|-..-+...|...|.
T Consensus 345 ~y~C~~Ck~~FCldCDv~iHesLh~ 369 (378)
T KOG2807|consen 345 RYRCESCKNVFCLDCDVFIHESLHN 369 (378)
T ss_pred cEEchhccceeeccchHHHHhhhhc
Confidence 48888 8888888777777877664
No 147
>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=25.13 E-value=80 Score=23.14 Aligned_cols=11 Identities=27% Similarity=1.078 Sum_probs=8.3
Q ss_pred CccccccccCC
Q 008017 181 EKKWKCEKCSK 191 (581)
Q Consensus 181 ekp~~C~~Cgk 191 (581)
...|+|..|++
T Consensus 35 ~~~~~C~~C~~ 45 (46)
T PF12760_consen 35 RGRYRCKACRK 45 (46)
T ss_pred CCeEECCCCCC
Confidence 56688888875
No 148
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=24.83 E-value=92 Score=32.85 Aligned_cols=68 Identities=18% Similarity=0.224 Sum_probs=45.5
Q ss_pred CccCCcccccccChhHHHHHHhhccCCCh------------hhhhcCcccccCCCccccCCCCCccCChHHHHHHHhhcC
Q 008017 64 GINFSLFNFIFFQFWGLIDFVLFESDPDA------------EVIALSPKSLMATNRFLCEICNKGFQRDQNLQLHRRGHN 131 (581)
Q Consensus 64 ~~~C~~C~k~F~~~~~L~~H~~~h~~~~~------------~~~~~~~k~~~~~k~f~C~~Cgk~F~~~s~L~~H~r~H~ 131 (581)
..+|++|+.+....-.|.+-.+--..-++ ..|-.|.........|.|..|...|-...+.-.|...|.
T Consensus 290 P~eCpiC~ltLVss~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~ 369 (378)
T KOG2807|consen 290 PIECPICSLTLVSSPHLARSYHHLFPLKPFVEIPETEYNGSRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHN 369 (378)
T ss_pred CccCCccceeEecchHHHHHHHhhcCCcchhhccccccCCCcceeeeccccCCCCcEEchhccceeeccchHHHHhhhhc
Confidence 34588888888888777765442111111 113344444566778999999999999999888877663
No 149
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=24.78 E-value=37 Score=35.35 Aligned_cols=27 Identities=26% Similarity=0.439 Sum_probs=22.3
Q ss_pred cCCccccccc---cCCccCChhHHHHHHhh
Q 008017 179 HGEKKWKCEK---CSKKYAVQSDWKAHSKI 205 (581)
Q Consensus 179 ~gekp~~C~~---Cgk~F~~~s~L~~H~~~ 205 (581)
.-+--|.|.. |.++|..+.+|..|+..
T Consensus 140 ~~g~iFmC~~~~GC~RTyLsqrDlqAHInh 169 (389)
T KOG2932|consen 140 MMGGIFMCAAPHGCLRTYLSQRDLQAHINH 169 (389)
T ss_pred cccceEEeecchhHHHHHhhHHHHHHHhhh
Confidence 4456689954 99999999999999875
No 150
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=24.63 E-value=44 Score=29.16 Aligned_cols=15 Identities=20% Similarity=0.536 Sum_probs=12.6
Q ss_pred ccccCCCCCccCChH
Q 008017 107 RFLCEICNKGFQRDQ 121 (581)
Q Consensus 107 ~f~C~~Cgk~F~~~s 121 (581)
++.|..||+.|..-+
T Consensus 2 pH~CtrCG~vf~~g~ 16 (112)
T COG3364 2 PHQCTRCGEVFDDGS 16 (112)
T ss_pred Cceeccccccccccc
Confidence 578999999998743
No 151
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=24.40 E-value=17 Score=41.92 Aligned_cols=57 Identities=21% Similarity=0.402 Sum_probs=33.5
Q ss_pred ccCCCCCccCChHHHHHHHhhcCCCcccccccccccccccccCCCCCccCCCCCCcccCchhhhhhhhcccCCccccccc
Q 008017 109 LCEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEK 188 (581)
Q Consensus 109 ~C~~Cgk~F~~~s~L~~H~r~H~~p~~~~~~~~~~~~~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~gekp~~C~~ 188 (581)
.|..||-.|+-...|-.-+..-. -..--.|+.| .+-|.+..+-+-| -.+..|+.
T Consensus 125 ~CT~CGPRfTIi~alPYDR~nTs-------------M~~F~lC~~C-------~~EY~dP~nRRfH------AQp~aCp~ 178 (750)
T COG0068 125 NCTNCGPRFTIIEALPYDRENTS-------------MADFPLCPFC-------DKEYKDPLNRRFH------AQPIACPK 178 (750)
T ss_pred ccCCCCcceeeeccCCCCcccCc-------------cccCcCCHHH-------HHHhcCccccccc------cccccCcc
Confidence 49999999987666543322111 1122358887 6666555543323 24678888
Q ss_pred cCC
Q 008017 189 CSK 191 (581)
Q Consensus 189 Cgk 191 (581)
||-
T Consensus 179 CGP 181 (750)
T COG0068 179 CGP 181 (750)
T ss_pred cCC
Confidence 885
No 152
>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=24.28 E-value=47 Score=33.83 Aligned_cols=25 Identities=12% Similarity=0.235 Sum_probs=12.7
Q ss_pred CCceeec-CCCccCChhHHHHHHhhh
Q 008017 208 TREYKCD-CGKLFSRRDSFITHRAFC 232 (581)
Q Consensus 208 ekpy~C~-Cgk~F~~~~~L~~H~~~h 232 (581)
.+++.|. |+.-......|..-.|.|
T Consensus 207 ~k~~PCPKCg~et~eTkdLSmStR~h 232 (314)
T PF06524_consen 207 GKPIPCPKCGYETQETKDLSMSTRSH 232 (314)
T ss_pred CCCCCCCCCCCcccccccceeeeecc
Confidence 3566666 665555444444333333
No 153
>PF05129 Elf1: Transcription elongation factor Elf1 like; InterPro: IPR007808 This family of uncharacterised, mostly short, proteins contain a putative zinc binding domain with four conserved cysteines.; PDB: 1WII_A.
Probab=24.27 E-value=17 Score=30.38 Aligned_cols=49 Identities=18% Similarity=0.297 Sum_probs=16.6
Q ss_pred CCCCCCCCCCCCccCCcccccccChhHHHHHHhhccCCChhhhhcCcccccCCCccccCCCCCccCCh
Q 008017 53 SKKKRSLPGNPGINFSLFNFIFFQFWGLIDFVLFESDPDAEVIALSPKSLMATNRFLCEICNKGFQRD 120 (581)
Q Consensus 53 ~kkkr~~~~~~~~~C~~C~k~F~~~~~L~~H~~~h~~~~~~~~~~~~k~~~~~k~f~C~~Cgk~F~~~ 120 (581)
.++++..+-...|.|+.|+-.- .-.+.+..+ .+.-...|.+|+..|...
T Consensus 11 ~~kk~~~~l~~~F~CPfC~~~~-----------------sV~v~idkk--~~~~~~~C~~Cg~~~~~~ 59 (81)
T PF05129_consen 11 PKKKKKPKLPKVFDCPFCNHEK-----------------SVSVKIDKK--EGIGILSCRVCGESFQTK 59 (81)
T ss_dssp ---------SS----TTT--SS------------------EEEEEETT--TTEEEEEESSS--EEEEE
T ss_pred CccCcCCCCCceEcCCcCCCCC-----------------eEEEEEEcc--CCEEEEEecCCCCeEEEc
Confidence 3444455566899999999311 111111111 223457899999988765
No 154
>KOG3214 consensus Uncharacterized Zn ribbon-containing protein [Function unknown]
Probab=24.07 E-value=25 Score=30.51 Aligned_cols=51 Identities=22% Similarity=0.268 Sum_probs=30.6
Q ss_pred CCCCCCCCCCCCccCCcccccccChhHHHHHHhhccCCChhhhhcCcccccCCCccccCCCCCccCChHH
Q 008017 53 SKKKRSLPGNPGINFSLFNFIFFQFWGLIDFVLFESDPDAEVIALSPKSLMATNRFLCEICNKGFQRDQN 122 (581)
Q Consensus 53 ~kkkr~~~~~~~~~C~~C~k~F~~~~~L~~H~~~h~~~~~~~~~~~~k~~~~~k~f~C~~Cgk~F~~~s~ 122 (581)
.|.++..+....|.|..|+---.-... +.. ........|.+|+..|.+.-+
T Consensus 12 ~k~r~~~~ldt~FnClfcnHek~v~~~-----------------~Dk--~~~iG~~sC~iC~esFqt~it 62 (109)
T KOG3214|consen 12 PKERRVEPLDTQFNCLFCNHEKSVSCT-----------------LDK--KHNIGKASCRICEESFQTTIT 62 (109)
T ss_pred chhhhccchheeeccCccccccceeee-----------------ehh--hcCcceeeeeehhhhhccchH
Confidence 333555666778999999853321111 111 122344679999999987644
No 155
>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=24.04 E-value=55 Score=30.05 Aligned_cols=29 Identities=7% Similarity=-0.205 Sum_probs=17.9
Q ss_pred CCCCccCCcccccccChhHHHHHHhhccCCCh
Q 008017 61 GNPGINFSLFNFIFFQFWGLIDFVLFESDPDA 92 (581)
Q Consensus 61 ~~~~~~C~~C~k~F~~~~~L~~H~~~h~~~~~ 92 (581)
......|-+||+.|... .+|++.|++-..
T Consensus 69 ~~d~i~clecGk~~k~L---krHL~~~~gltp 97 (132)
T PF05443_consen 69 TPDYIICLECGKKFKTL---KRHLRTHHGLTP 97 (132)
T ss_dssp -SS-EE-TBT--EESBH---HHHHHHTT-S-H
T ss_pred ccCeeEEccCCcccchH---HHHHHHccCCCH
Confidence 55678899999988764 999999987443
No 156
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.85 E-value=55 Score=28.96 Aligned_cols=13 Identities=15% Similarity=0.138 Sum_probs=9.5
Q ss_pred CccccccccCCcc
Q 008017 181 EKKWKCEKCSKKY 193 (581)
Q Consensus 181 ekp~~C~~Cgk~F 193 (581)
..|..|++||+.|
T Consensus 24 rdPiVsPytG~s~ 36 (129)
T COG4530 24 RDPIVSPYTGKSY 36 (129)
T ss_pred CCccccCcccccc
Confidence 3677777777777
No 157
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=23.55 E-value=39 Score=24.75 Aligned_cols=11 Identities=18% Similarity=0.597 Sum_probs=7.1
Q ss_pred cccccccCCcc
Q 008017 183 KWKCEKCSKKY 193 (581)
Q Consensus 183 p~~C~~Cgk~F 193 (581)
.+.|+.||..+
T Consensus 21 ~~~Cp~CG~~~ 31 (46)
T PRK00398 21 GVRCPYCGYRI 31 (46)
T ss_pred ceECCCCCCeE
Confidence 46777777544
No 158
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=23.45 E-value=66 Score=39.80 Aligned_cols=10 Identities=30% Similarity=0.657 Sum_probs=8.1
Q ss_pred ccccCCCCCc
Q 008017 107 RFLCEICNKG 116 (581)
Q Consensus 107 ~f~C~~Cgk~ 116 (581)
.++|+.||..
T Consensus 667 ~rkCPkCG~~ 676 (1337)
T PRK14714 667 RRRCPSCGTE 676 (1337)
T ss_pred EEECCCCCCc
Confidence 5889999974
No 159
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=23.13 E-value=2.1e+02 Score=27.14 Aligned_cols=40 Identities=13% Similarity=0.411 Sum_probs=24.4
Q ss_pred CCChhhhhcCcccccCCCccccCCCCCccCChHHHHHHHhhcC
Q 008017 89 DPDAEVIALSPKSLMATNRFLCEICNKGFQRDQNLQLHRRGHN 131 (581)
Q Consensus 89 ~~~~~~~~~~~k~~~~~k~f~C~~Cgk~F~~~s~L~~H~r~H~ 131 (581)
-+...++.++.--..|-+||.|. -.|....-|.+=.+.+.
T Consensus 11 ~PHNAVLLlCSS~~kgcRpymc~---Ts~rhSNCLdqfkka~~ 50 (162)
T PF07800_consen 11 HPHNAVLLLCSSHEKGCRPYMCD---TSYRHSNCLDQFKKAYG 50 (162)
T ss_pred CCCceEEEEeccccCCccccccC---CccchhHHHHHHHHHhc
Confidence 34444555555555667788764 56666677776666554
No 160
>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=23.11 E-value=40 Score=24.36 Aligned_cols=30 Identities=20% Similarity=0.454 Sum_probs=18.2
Q ss_pred cccCCCCCccCCCCCCcccCchhhhhhhhcccCCccccccccCC
Q 008017 148 VYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSK 191 (581)
Q Consensus 148 py~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~gekp~~C~~Cgk 191 (581)
.|.|..| +..|..... ... .....|+.||.
T Consensus 5 ey~C~~C-------g~~fe~~~~------~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 5 EYRCEEC-------GHEFEVLQS------ISE-DDPVPCPECGS 34 (42)
T ss_pred EEEeCCC-------CCEEEEEEE------cCC-CCCCcCCCCCC
Confidence 4778877 666643322 222 45677888876
No 161
>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=23.08 E-value=43 Score=23.96 Aligned_cols=23 Identities=26% Similarity=0.602 Sum_probs=13.4
Q ss_pred hhhhhhhcccCCccccccccCCc
Q 008017 170 GIKKHFSRKHGEKKWKCEKCSKK 192 (581)
Q Consensus 170 ~L~~H~~~H~gekp~~C~~Cgk~ 192 (581)
.|.-......+.+.|+|.+|+..
T Consensus 11 ylNp~~~~~~~~~~w~C~~C~~~ 33 (40)
T PF04810_consen 11 YLNPFCQFDDGGKTWICNFCGTK 33 (40)
T ss_dssp BS-TTSEEETTTTEEEETTT--E
T ss_pred EECCcceEcCCCCEEECcCCCCc
Confidence 34555555566677888888764
No 162
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=23.02 E-value=58 Score=25.63 Aligned_cols=8 Identities=25% Similarity=0.849 Sum_probs=4.4
Q ss_pred ccccCCCC
Q 008017 147 KVYVCPEP 154 (581)
Q Consensus 147 kpy~C~~C 154 (581)
-.|.|+.|
T Consensus 24 ~~F~CPnC 31 (59)
T PRK14890 24 VKFLCPNC 31 (59)
T ss_pred CEeeCCCC
Confidence 34556655
No 163
>KOG4217 consensus Nuclear receptors of the nerve growth factor-induced protein B type [Transcription]
Probab=22.94 E-value=1.4e+02 Score=33.04 Aligned_cols=9 Identities=33% Similarity=0.885 Sum_probs=3.7
Q ss_pred CCCCCCCCC
Q 008017 341 TSFAPFEPP 349 (581)
Q Consensus 341 ~~~~~~~~~ 349 (581)
++.|.+++|
T Consensus 147 Pttpafqpp 155 (605)
T KOG4217|consen 147 PTTPAFQPP 155 (605)
T ss_pred CCCCCCCCC
Confidence 334444433
No 164
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=22.73 E-value=55 Score=38.53 Aligned_cols=29 Identities=17% Similarity=0.523 Sum_probs=20.6
Q ss_pred hcccCCccccccccCCccCChhHHHHHHhhhCCCceeec-CCCc
Q 008017 176 SRKHGEKKWKCEKCSKKYAVQSDWKAHSKICGTREYKCD-CGKL 218 (581)
Q Consensus 176 ~~H~gekp~~C~~Cgk~F~~~s~L~~H~~~~gekpy~C~-Cgk~ 218 (581)
..|...+...|.+||+. ...|..|. ||-.
T Consensus 455 t~H~~~~~L~CH~Cg~~--------------~~~p~~Cp~Cgs~ 484 (730)
T COG1198 455 TLHKATGQLRCHYCGYQ--------------EPIPQSCPECGSE 484 (730)
T ss_pred EEecCCCeeEeCCCCCC--------------CCCCCCCCCCCCC
Confidence 34445567899999865 34688999 9855
No 165
>PRK05654 acetyl-CoA carboxylase subunit beta; Validated
Probab=22.67 E-value=50 Score=34.49 Aligned_cols=41 Identities=10% Similarity=0.131 Sum_probs=28.6
Q ss_pred CCCCCCCCccCCcccccccChhHHHHHHhhccCCChhhhhcCcccccCCCccccCCCCCccCChH
Q 008017 57 RSLPGNPGINFSLFNFIFFQFWGLIDFVLFESDPDAEVIALSPKSLMATNRFLCEICNKGFQRDQ 121 (581)
Q Consensus 57 r~~~~~~~~~C~~C~k~F~~~~~L~~H~~~h~~~~~~~~~~~~k~~~~~k~f~C~~Cgk~F~~~s 121 (581)
+..|..-..+|+.|+.....+..- ++.+.|+.|+.-|+-..
T Consensus 20 ~~~~~~~~~~c~~c~~~~~~~~l~------------------------~~~~vc~~c~~h~rl~a 60 (292)
T PRK05654 20 AEVPEGLWTKCPSCGQVLYRKELE------------------------ANLNVCPKCGHHMRISA 60 (292)
T ss_pred CCCCCCCeeECCCccchhhHHHHH------------------------hcCCCCCCCCCCeeCCH
Confidence 345666688999999977655431 23478999999886443
No 166
>TIGR00515 accD acetyl-CoA carboxylase, carboxyl transferase, beta subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the beta chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=22.34 E-value=60 Score=33.80 Aligned_cols=41 Identities=12% Similarity=0.164 Sum_probs=28.8
Q ss_pred CCCCCCCCccCCcccccccChhHHHHHHhhccCCChhhhhcCcccccCCCccccCCCCCccCChH
Q 008017 57 RSLPGNPGINFSLFNFIFFQFWGLIDFVLFESDPDAEVIALSPKSLMATNRFLCEICNKGFQRDQ 121 (581)
Q Consensus 57 r~~~~~~~~~C~~C~k~F~~~~~L~~H~~~h~~~~~~~~~~~~k~~~~~k~f~C~~Cgk~F~~~s 121 (581)
+..|..-..+|+.|+.....+... ++-+.|+.|+.-|+-..
T Consensus 19 ~~~~~~~~~~c~~c~~~~~~~~l~------------------------~~~~vc~~c~~h~rl~a 59 (285)
T TIGR00515 19 AEVPEGVWTKCPKCGQVLYTKELE------------------------RNLEVCPKCDHHMRMDA 59 (285)
T ss_pred CCCCCCCeeECCCCcchhhHHHHH------------------------hhCCCCCCCCCcCcCCH
Confidence 345555688999999987665531 23478999999876443
No 167
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=21.99 E-value=49 Score=30.28 Aligned_cols=15 Identities=20% Similarity=0.594 Sum_probs=12.5
Q ss_pred ccccCCCCCccCChH
Q 008017 107 RFLCEICNKGFQRDQ 121 (581)
Q Consensus 107 ~f~C~~Cgk~F~~~s 121 (581)
|++|..||+.|..-+
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 578999999998654
No 168
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=21.90 E-value=45 Score=31.27 Aligned_cols=32 Identities=28% Similarity=0.889 Sum_probs=19.3
Q ss_pred ccccccccCCccCChhHHHHHHhh-hCCCceeec-CCCc
Q 008017 182 KKWKCEKCSKKYAVQSDWKAHSKI-CGTREYKCD-CGKL 218 (581)
Q Consensus 182 kp~~C~~Cgk~F~~~s~L~~H~~~-~gekpy~C~-Cgk~ 218 (581)
-+|.|. |+..|-+. ++|-.. -|+ .|.|. |+-.
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 457777 77765543 344444 455 78887 7643
No 169
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=21.90 E-value=47 Score=30.35 Aligned_cols=17 Identities=29% Similarity=1.062 Sum_probs=13.2
Q ss_pred CCccccccccCCccCCh
Q 008017 180 GEKKWKCEKCSKKYAVQ 196 (581)
Q Consensus 180 gekp~~C~~Cgk~F~~~ 196 (581)
+...|+|..|++.|...
T Consensus 50 ~~qRyrC~~C~~tf~~~ 66 (129)
T COG3677 50 GHQRYKCKSCGSTFTVE 66 (129)
T ss_pred cccccccCCcCcceeee
Confidence 35669999999988754
No 170
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=20.92 E-value=61 Score=23.87 Aligned_cols=11 Identities=18% Similarity=0.742 Sum_probs=7.0
Q ss_pred ccccccccCCc
Q 008017 182 KKWKCEKCSKK 192 (581)
Q Consensus 182 kp~~C~~Cgk~ 192 (581)
.+.+|+.||..
T Consensus 18 ~~irC~~CG~r 28 (44)
T smart00659 18 DVVRCRECGYR 28 (44)
T ss_pred CceECCCCCce
Confidence 45677777754
No 171
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=20.70 E-value=86 Score=31.78 Aligned_cols=60 Identities=22% Similarity=0.494 Sum_probs=34.7
Q ss_pred CCCccccCCCCCccCChHHHHHHHhhcCCCcccccccccccccccccCCCCCccCCCCCCcccCchhhhhhhhcccCCcc
Q 008017 104 ATNRFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKK 183 (581)
Q Consensus 104 ~~k~f~C~~Cgk~F~~~s~L~~H~r~H~~p~~~~~~~~~~~~~kpy~C~~C~C~~~~~~k~F~~~s~L~~H~~~H~gekp 183 (581)
..+.|.|..|...+-+ |+-. .+..-.|..| .+.|.-... - .--|.--
T Consensus 109 ~drqFaC~~Cd~~WwR--------rvp~-------------rKeVSRCr~C-------~~rYDPVP~---d--kmwG~ae 155 (278)
T PF15135_consen 109 VDRQFACSSCDHMWWR--------RVPQ-------------RKEVSRCRKC-------RKRYDPVPC---D--KMWGIAE 155 (278)
T ss_pred cceeeeccccchHHHh--------ccCc-------------cccccccccc-------ccccCCCcc---c--cccceee
Confidence 3578999999765432 2221 4556677777 555533221 0 0113334
Q ss_pred ccccccCCccCCh
Q 008017 184 WKCEKCSKKYAVQ 196 (581)
Q Consensus 184 ~~C~~Cgk~F~~~ 196 (581)
|.|..|+..|+..
T Consensus 156 f~C~~C~h~F~G~ 168 (278)
T PF15135_consen 156 FHCPKCRHNFRGF 168 (278)
T ss_pred eecccccccchhh
Confidence 8888888888754
No 172
>PRK14873 primosome assembly protein PriA; Provisional
Probab=20.41 E-value=58 Score=38.02 Aligned_cols=27 Identities=19% Similarity=0.620 Sum_probs=18.6
Q ss_pred cccCCccccccccCCccCChhHHHHHHhhhCCCceeec-CCCc
Q 008017 177 RKHGEKKWKCEKCSKKYAVQSDWKAHSKICGTREYKCD-CGKL 218 (581)
Q Consensus 177 ~H~gekp~~C~~Cgk~F~~~s~L~~H~~~~gekpy~C~-Cgk~ 218 (581)
.|...+...|.+||+. ..++.|. ||..
T Consensus 404 ~h~~~~~l~Ch~CG~~---------------~~p~~Cp~Cgs~ 431 (665)
T PRK14873 404 LPSAGGTPRCRWCGRA---------------APDWRCPRCGSD 431 (665)
T ss_pred EecCCCeeECCCCcCC---------------CcCccCCCCcCC
Confidence 3445567889999863 1367898 9864
Done!