Query 011807
Match_columns 477
No_of_seqs 432 out of 3392
Neff 7.1
Searched_HMMs 46136
Date Fri Mar 29 05:26:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011807.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/011807hhsearch_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 8.8E-25 1.9E-29 209.7 7.9 122 79-220 129-263 (279)
2 KOG2462 C2H2-type Zn-finger pr 99.9 1.4E-22 3.1E-27 194.6 11.1 134 49-205 127-265 (279)
3 KOG1074 Transcriptional repres 99.8 2.3E-19 4.9E-24 192.3 4.4 75 123-204 606-689 (958)
4 KOG3608 Zn finger proteins [Ge 99.7 2.7E-18 5.8E-23 168.8 3.6 171 56-247 183-368 (467)
5 KOG3576 Ovo and related transc 99.7 2.3E-17 5E-22 151.6 7.2 108 77-205 114-234 (267)
6 KOG1074 Transcriptional repres 99.6 3.2E-16 7E-21 168.4 1.3 92 157-248 605-726 (958)
7 KOG3608 Zn finger proteins [Ge 99.5 3.3E-14 7.1E-19 140.2 3.9 145 56-223 211-376 (467)
8 KOG3623 Homeobox transcription 99.4 1.9E-14 4.1E-19 152.5 0.9 106 80-204 210-330 (1007)
9 KOG3576 Ovo and related transc 99.4 1.2E-13 2.6E-18 127.3 1.3 106 119-241 114-222 (267)
10 KOG3623 Homeobox transcription 99.3 3.1E-13 6.7E-18 143.4 0.8 80 118-204 890-971 (1007)
11 PLN03086 PRLI-interacting fact 99.1 2.1E-10 4.4E-15 122.9 7.3 104 78-208 451-565 (567)
12 PLN03086 PRLI-interacting fact 98.8 7.3E-09 1.6E-13 111.2 8.2 136 80-242 407-552 (567)
13 PHA00733 hypothetical protein 98.8 2.9E-09 6.3E-14 94.2 3.7 79 119-205 37-121 (128)
14 PHA00733 hypothetical protein 98.7 6.7E-09 1.5E-13 91.8 3.3 96 66-181 26-124 (128)
15 PHA02768 hypothetical protein; 98.5 2.7E-08 5.8E-13 74.0 1.3 42 123-173 6-47 (55)
16 PHA02768 hypothetical protein; 98.4 1.5E-07 3.2E-12 70.1 1.4 43 157-200 5-48 (55)
17 PF13465 zf-H2C2_2: Zinc-finge 98.3 2.5E-07 5.5E-12 58.7 1.1 26 144-169 1-26 (26)
18 KOG3993 Transcription factor ( 98.2 3.8E-07 8.3E-12 92.8 -0.0 81 122-209 267-382 (500)
19 KOG3993 Transcription factor ( 98.1 1E-06 2.2E-11 89.7 0.6 91 56-153 271-380 (500)
20 COG5189 SFP1 Putative transcri 97.8 2E-05 4.3E-10 77.8 4.8 24 78-101 347-372 (423)
21 PF13465 zf-H2C2_2: Zinc-finge 97.8 9.9E-06 2.1E-10 51.4 1.3 24 172-195 1-26 (26)
22 PHA00616 hypothetical protein 97.7 9.5E-06 2.1E-10 57.7 0.7 36 122-164 1-36 (44)
23 PHA00732 hypothetical protein 97.7 2.2E-05 4.9E-10 63.5 2.3 45 122-179 1-46 (79)
24 COG5189 SFP1 Putative transcri 97.6 2.4E-05 5.1E-10 77.3 1.0 50 155-204 347-419 (423)
25 PHA00732 hypothetical protein 97.4 0.00014 3E-09 58.9 3.5 48 80-154 1-49 (79)
26 PHA00616 hypothetical protein 97.3 5.8E-05 1.3E-09 53.7 0.1 32 157-188 1-33 (44)
27 PF05605 zf-Di19: Drought indu 97.2 0.00046 1E-08 51.6 3.8 52 80-153 2-53 (54)
28 PF00096 zf-C2H2: Zinc finger, 97.1 0.00026 5.6E-09 43.1 1.7 23 81-103 1-23 (23)
29 PF00096 zf-C2H2: Zinc finger, 96.8 0.00096 2.1E-08 40.6 2.1 20 185-204 1-21 (23)
30 PF05605 zf-Di19: Drought indu 96.6 0.0014 3E-08 49.0 2.5 47 123-179 3-51 (54)
31 PF13894 zf-C2H2_4: C2H2-type 96.5 0.0017 3.7E-08 39.3 2.1 24 81-104 1-24 (24)
32 PF12756 zf-C2H2_2: C2H2 type 96.5 0.0012 2.6E-08 54.7 1.6 72 82-179 1-72 (100)
33 PF13912 zf-C2H2_6: C2H2-type 96.4 0.0021 4.5E-08 40.7 2.1 25 80-104 1-25 (27)
34 KOG2231 Predicted E3 ubiquitin 96.3 0.0071 1.5E-07 66.5 6.5 146 81-240 100-282 (669)
35 COG5048 FOG: Zn-finger [Genera 96.2 0.0051 1.1E-07 63.5 4.6 125 79-224 288-442 (467)
36 PF12756 zf-C2H2_2: C2H2 type 96.1 0.0039 8.5E-08 51.6 2.4 71 124-205 1-72 (100)
37 PF13894 zf-C2H2_4: C2H2-type 96.0 0.0028 6E-08 38.4 0.9 19 159-177 2-20 (24)
38 PF13912 zf-C2H2_6: C2H2-type 95.6 0.0059 1.3E-07 38.6 1.2 23 157-179 1-23 (27)
39 PF09237 GAGA: GAGA factor; I 95.3 0.0088 1.9E-07 43.7 1.3 31 154-184 21-52 (54)
40 smart00355 ZnF_C2H2 zinc finge 95.1 0.014 3.1E-07 35.6 1.8 24 81-104 1-24 (26)
41 COG5048 FOG: Zn-finger [Genera 95.1 0.058 1.3E-06 55.6 7.4 143 53-200 290-462 (467)
42 PRK04860 hypothetical protein; 94.7 0.012 2.6E-07 54.1 0.9 36 157-196 119-156 (160)
43 PRK04860 hypothetical protein; 94.7 0.012 2.7E-07 54.0 0.9 40 121-171 118-157 (160)
44 KOG2231 Predicted E3 ubiquitin 94.3 0.041 8.9E-07 60.7 4.1 95 137-240 122-247 (669)
45 PF12874 zf-met: Zinc-finger o 94.2 0.029 6.3E-07 34.6 1.7 23 81-103 1-23 (25)
46 COG5236 Uncharacterized conser 94.1 0.066 1.4E-06 54.0 4.7 134 80-227 151-309 (493)
47 KOG1146 Homeobox protein [Gene 93.5 0.058 1.3E-06 62.9 3.4 67 77-150 462-539 (1406)
48 smart00355 ZnF_C2H2 zinc finge 93.3 0.044 9.5E-07 33.3 1.3 22 158-179 1-22 (26)
49 PF09237 GAGA: GAGA factor; I 93.2 0.045 9.7E-07 40.1 1.3 33 118-157 20-52 (54)
50 PF12171 zf-C2H2_jaz: Zinc-fin 93.1 0.06 1.3E-06 34.1 1.7 22 158-179 2-23 (27)
51 PF13913 zf-C2HC_2: zinc-finge 93.0 0.069 1.5E-06 33.4 1.8 21 185-206 3-24 (25)
52 PF12874 zf-met: Zinc-finger o 92.5 0.057 1.2E-06 33.3 0.9 21 158-178 1-21 (25)
53 COG5236 Uncharacterized conser 92.3 0.11 2.5E-06 52.4 3.2 93 123-222 152-273 (493)
54 PF12171 zf-C2H2_jaz: Zinc-fin 91.8 0.062 1.3E-06 34.0 0.5 23 81-103 2-24 (27)
55 KOG4173 Alpha-SNAP protein [In 89.7 0.11 2.3E-06 49.0 0.2 79 119-205 76-168 (253)
56 KOG2482 Predicted C2H2-type Zn 88.8 0.52 1.1E-05 47.8 4.2 22 158-179 196-217 (423)
57 PF13909 zf-H2C2_5: C2H2-type 88.5 0.19 4E-06 30.7 0.6 8 170-177 12-19 (24)
58 KOG1146 Homeobox protein [Gene 88.2 0.2 4.3E-06 58.7 1.1 78 119-206 462-541 (1406)
59 PF13909 zf-H2C2_5: C2H2-type 87.5 0.35 7.5E-06 29.5 1.4 23 81-104 1-23 (24)
60 smart00451 ZnF_U1 U1-like zinc 84.0 0.6 1.3E-05 31.0 1.3 23 157-179 3-25 (35)
61 smart00451 ZnF_U1 U1-like zinc 83.8 0.87 1.9E-05 30.2 2.1 24 80-103 3-26 (35)
62 KOG2893 Zn finger protein [Gen 83.0 0.34 7.4E-06 46.7 -0.2 43 125-178 13-55 (341)
63 PF13913 zf-C2HC_2: zinc-finge 82.6 1 2.2E-05 28.1 1.8 21 81-102 3-23 (25)
64 KOG2482 Predicted C2H2-type Zn 80.5 0.94 2E-05 46.0 1.8 94 122-222 195-356 (423)
65 KOG2893 Zn finger protein [Gen 77.3 1.2 2.5E-05 43.1 1.3 41 83-148 13-53 (341)
66 PF09986 DUF2225: Uncharacteri 75.8 1.2 2.5E-05 43.0 0.8 41 156-196 4-61 (214)
67 KOG2186 Cell growth-regulating 75.1 1.6 3.4E-05 42.7 1.5 45 158-204 4-49 (276)
68 KOG4173 Alpha-SNAP protein [In 73.8 1 2.3E-05 42.6 -0.0 79 78-180 77-170 (253)
69 COG4049 Uncharacterized protei 71.1 1.4 2.9E-05 33.0 0.0 25 180-204 13-38 (65)
70 COG4049 Uncharacterized protei 69.3 2.2 4.7E-05 32.0 0.8 27 151-177 11-37 (65)
71 KOG1924 RhoA GTPase effector D 68.3 32 0.00069 39.1 9.7 11 187-197 439-450 (1102)
72 PRK00464 nrdR transcriptional 68.1 2 4.4E-05 39.2 0.5 15 158-172 29-43 (154)
73 KOG2785 C2H2-type Zn-finger pr 64.9 10 0.00022 39.4 4.8 49 157-205 166-242 (390)
74 KOG1924 RhoA GTPase effector D 63.9 16 0.00034 41.3 6.3 6 78-83 156-161 (1102)
75 PF09538 FYDLN_acid: Protein o 63.4 4.1 8.8E-05 35.0 1.5 15 156-170 25-39 (108)
76 cd00350 rubredoxin_like Rubred 62.5 4.8 0.0001 26.7 1.4 10 156-165 16-25 (33)
77 PF04959 ARS2: Arsenite-resist 60.5 2.4 5.1E-05 40.9 -0.5 23 157-179 77-99 (214)
78 KOG4124 Putative transcription 56.4 11 0.00023 38.7 3.2 27 76-102 345-373 (442)
79 KOG4124 Putative transcription 56.1 4.4 9.6E-05 41.4 0.5 28 72-100 205-232 (442)
80 PF02892 zf-BED: BED zinc fing 55.0 11 0.00023 26.5 2.2 26 77-102 13-42 (45)
81 PF13717 zinc_ribbon_4: zinc-r 54.1 9 0.00019 26.1 1.6 31 159-193 4-35 (36)
82 PF05443 ROS_MUCR: ROS/MUCR tr 53.1 11 0.00024 33.6 2.4 25 77-104 69-93 (132)
83 PRK00464 nrdR transcriptional 51.3 6.4 0.00014 36.0 0.7 17 183-199 27-44 (154)
84 PF09986 DUF2225: Uncharacteri 50.9 6.5 0.00014 37.9 0.7 44 120-170 3-61 (214)
85 PF13719 zinc_ribbon_5: zinc-r 50.9 10 0.00022 25.9 1.5 12 159-170 4-15 (37)
86 TIGR02098 MJ0042_CXXC MJ0042 f 50.8 9.4 0.0002 25.9 1.3 12 159-170 4-15 (38)
87 TIGR00622 ssl1 transcription f 50.5 27 0.00059 30.2 4.3 89 79-180 14-104 (112)
88 smart00531 TFIIE Transcription 49.6 13 0.00028 33.5 2.4 35 156-193 98-133 (147)
89 TIGR02300 FYDLN_acid conserved 48.0 11 0.00023 33.3 1.5 13 183-195 25-38 (129)
90 COG1997 RPL43A Ribosomal prote 47.1 9.6 0.00021 31.3 1.0 11 158-168 54-64 (89)
91 KOG2593 Transcription initiati 46.3 13 0.00029 39.1 2.2 39 153-193 124-163 (436)
92 PHA00626 hypothetical protein 45.8 9.7 0.00021 28.6 0.8 11 158-168 24-34 (59)
93 COG1592 Rubrerythrin [Energy p 40.6 15 0.00033 34.0 1.4 24 121-164 133-156 (166)
94 smart00614 ZnF_BED BED zinc fi 39.5 21 0.00046 25.8 1.8 25 79-103 17-47 (50)
95 PF09538 FYDLN_acid: Protein o 39.3 21 0.00045 30.7 1.9 30 157-196 9-39 (108)
96 TIGR00622 ssl1 transcription f 39.1 54 0.0012 28.3 4.5 77 120-204 13-102 (112)
97 KOG2186 Cell growth-regulating 38.9 12 0.00026 36.7 0.5 50 122-181 3-53 (276)
98 PRK09678 DNA-binding transcrip 38.7 11 0.00025 29.9 0.3 39 158-197 2-43 (72)
99 PTZ00303 phosphatidylinositol 38.4 17 0.00036 41.1 1.5 8 410-417 870-877 (1374)
100 KOG4167 Predicted DNA-binding 38.4 38 0.00082 38.2 4.2 27 78-104 790-816 (907)
101 KOG2785 C2H2-type Zn-finger pr 38.2 50 0.0011 34.4 4.8 77 77-179 163-242 (390)
102 PF12013 DUF3505: Protein of u 38.1 34 0.00073 29.0 3.1 48 156-204 10-105 (109)
103 COG1996 RPC10 DNA-directed RNA 37.9 17 0.00037 26.6 1.0 10 158-167 7-16 (49)
104 COG1592 Rubrerythrin [Energy p 37.5 17 0.00037 33.6 1.2 23 157-191 134-157 (166)
105 PF06524 NOA36: NOA36 protein; 37.5 30 0.00065 34.2 2.9 19 182-200 207-226 (314)
106 TIGR00373 conserved hypothetic 36.7 21 0.00046 32.6 1.8 17 157-173 109-125 (158)
107 COG4957 Predicted transcriptio 36.3 24 0.00053 31.4 1.9 22 80-104 76-97 (148)
108 COG2888 Predicted Zn-ribbon RN 34.8 28 0.00061 26.5 1.8 9 183-191 49-58 (61)
109 PRK06266 transcription initiat 34.2 22 0.00047 33.3 1.4 31 156-194 116-147 (178)
110 PRK14890 putative Zn-ribbon RN 34.1 28 0.00061 26.5 1.7 9 183-191 47-56 (59)
111 COG1198 PriA Primosomal protei 33.9 16 0.00034 41.6 0.5 10 155-164 473-482 (730)
112 cd00729 rubredoxin_SM Rubredox 33.3 26 0.00057 23.5 1.3 10 156-165 17-26 (34)
113 KOG4377 Zn-finger protein [Gen 33.1 1.4E+02 0.003 31.6 7.0 69 119-195 268-361 (480)
114 smart00440 ZnF_C2C2 C2C2 Zinc 32.3 16 0.00034 25.5 0.1 10 184-193 28-38 (40)
115 smart00734 ZnF_Rad18 Rad18-lik 31.6 40 0.00088 21.1 1.9 20 186-206 3-23 (26)
116 TIGR00373 conserved hypothetic 31.3 37 0.0008 31.1 2.4 34 119-168 106-139 (158)
117 smart00531 TFIIE Transcription 30.1 41 0.00089 30.3 2.5 39 119-168 96-134 (147)
118 KOG4317 Predicted Zn-finger pr 29.5 13 0.00028 37.6 -1.0 13 158-170 20-32 (383)
119 TIGR02605 CxxC_CxxC_SSSS putat 29.4 24 0.00052 25.6 0.7 10 156-165 25-34 (52)
120 KOG4377 Zn-finger protein [Gen 29.1 47 0.001 35.0 2.9 81 77-168 268-360 (480)
121 PTZ00255 60S ribosomal protein 29.1 28 0.00061 28.9 1.1 11 158-168 55-65 (90)
122 PF15135 UPF0515: Uncharacteri 29.0 50 0.0011 32.5 2.9 58 119-195 109-167 (278)
123 PRK04023 DNA polymerase II lar 28.0 51 0.0011 38.6 3.2 11 79-89 625-635 (1121)
124 PF01096 TFIIS_C: Transcriptio 27.8 10 0.00022 26.3 -1.5 9 185-193 29-38 (39)
125 PRK06266 transcription initiat 27.8 42 0.00091 31.4 2.2 35 119-169 114-148 (178)
126 PRK09678 DNA-binding transcrip 27.8 24 0.00052 28.0 0.5 21 153-173 23-45 (72)
127 TIGR01384 TFS_arch transcripti 27.7 28 0.00061 29.2 0.9 37 157-195 62-102 (104)
128 COG3091 SprT Zn-dependent meta 27.3 32 0.00069 31.3 1.2 32 156-192 116-149 (156)
129 PF04959 ARS2: Arsenite-resist 27.2 41 0.0009 32.4 2.0 26 180-205 73-99 (214)
130 PF09416 UPF1_Zn_bind: RNA hel 26.7 39 0.00085 30.8 1.7 37 156-192 13-69 (152)
131 TIGR02300 FYDLN_acid conserved 26.1 49 0.0011 29.2 2.1 35 122-174 9-43 (129)
132 TIGR00280 L37a ribosomal prote 26.0 32 0.0007 28.6 0.9 11 158-168 54-64 (91)
133 KOG3408 U1-like Zn-finger-cont 25.5 27 0.00058 30.5 0.4 23 157-179 57-79 (129)
134 COG4530 Uncharacterized protei 25.5 29 0.00062 29.8 0.5 12 156-167 25-36 (129)
135 PLN03238 probable histone acet 25.1 49 0.0011 33.3 2.2 26 183-208 47-73 (290)
136 PF04810 zf-Sec23_Sec24: Sec23 25.1 31 0.00067 23.9 0.6 22 145-166 12-33 (40)
137 smart00834 CxxC_CXXC_SSSS Puta 24.2 36 0.00077 23.1 0.7 9 157-165 26-34 (41)
138 KOG2272 Focal adhesion protein 23.6 32 0.0007 33.8 0.6 17 183-199 220-237 (332)
139 PRK00398 rpoP DNA-directed RNA 23.2 37 0.0008 24.1 0.7 11 157-167 21-31 (46)
140 PF02176 zf-TRAF: TRAF-type zi 22.8 57 0.0012 24.1 1.7 27 142-168 23-53 (60)
141 PF02462 Opacity: Opacity fami 22.7 20 0.00043 31.9 -1.0 28 414-451 84-111 (132)
142 PF05443 ROS_MUCR: ROS/MUCR tr 22.1 37 0.00079 30.3 0.6 10 146-155 86-95 (132)
143 PF06524 NOA36: NOA36 protein; 22.0 65 0.0014 31.9 2.3 84 152-247 137-225 (314)
144 KOG2932 E3 ubiquitin ligase in 21.8 6.9E+02 0.015 25.6 9.3 25 180-204 140-168 (389)
145 KOG4167 Predicted DNA-binding 21.7 19 0.00042 40.3 -1.5 23 158-180 793-815 (907)
146 PF15269 zf-C2H2_7: Zinc-finge 20.6 68 0.0015 23.1 1.5 21 185-205 21-42 (54)
147 COG1327 Predicted transcriptio 20.2 38 0.00083 30.8 0.3 55 157-218 28-86 (156)
No 1
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.91 E-value=8.8e-25 Score=209.73 Aligned_cols=122 Identities=22% Similarity=0.478 Sum_probs=61.4
Q ss_pred CceecCCCCccccChhHHHHHHhhcCCCccccccccccccccCcccCCCCCCCCCCCCCcccCchhhhhhhhhccccccc
Q 011807 79 NRFVCEVCNKGFQRDQNLQLHRRGHNLPWKLKQRSNKDIIKKKAYVCPEPSCVHHHPSRALGDLTGIKKHFCRKHGERKW 158 (477)
Q Consensus 79 k~~~C~~Cgk~F~~~~~L~~H~r~H~~p~~c~~~~~~~~~~~k~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Htgekpf 158 (477)
..|+|.+|||.|.+..+|.+|..+|..- ...+.+.|++| +|.|.....|+.|+|+|+ -++
T Consensus 129 ~r~~c~eCgk~ysT~snLsrHkQ~H~~~-----------~s~ka~~C~~C-------~K~YvSmpALkMHirTH~--l~c 188 (279)
T KOG2462|consen 129 PRYKCPECGKSYSTSSNLSRHKQTHRSL-----------DSKKAFSCKYC-------GKVYVSMPALKMHIRTHT--LPC 188 (279)
T ss_pred Cceeccccccccccccccchhhcccccc-----------cccccccCCCC-------CceeeehHHHhhHhhccC--CCc
Confidence 3455555555555555555555555300 12344555555 555555555555555554 345
Q ss_pred cccccccccCChhHhhhhhcc-cCCcceecC-CCCcccChhHHHHHHHH-----------hhhhhcChHHHHHHH
Q 011807 159 KCEKCSKVYAVQSDWKAHSKT-CGTREYRCD-CGTLFSRKDSFITHRAF-----------CDALAEESARLSANQ 220 (477)
Q Consensus 159 ~C~~C~K~F~~~s~L~~H~r~-~gekpy~C~-Cgk~F~~~~~L~~H~~~-----------C~k~f~~~~~L~~H~ 220 (477)
+|.+|||.|.+..-|+.|+|+ +|||||.|. |+|.|..+++|+.|+.+ |+|.|..++.|.+|.
T Consensus 189 ~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ 263 (279)
T KOG2462|consen 189 ECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHS 263 (279)
T ss_pred ccccccccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhh
Confidence 555555555555555555555 455555555 55555555555555543 555555555555554
No 2
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.88 E-value=1.4e-22 Score=194.56 Aligned_cols=134 Identities=22% Similarity=0.420 Sum_probs=124.0
Q ss_pred cccccCCCCCCCCCCchhhhhcCccccC---CCCceecCCCCccccChhHHHHHHhhcCCCccccccccccccccCcccC
Q 011807 49 QKAKKKRSLPGNPDPDAEVIALSPKTLL---ATNRFVCEVCNKGFQRDQNLQLHRRGHNLPWKLKQRSNKDIIKKKAYVC 125 (477)
Q Consensus 49 ~~~kkk~~~~~~~~~~~~~~~~~~~~~~---~~k~~~C~~Cgk~F~~~~~L~~H~r~H~~p~~c~~~~~~~~~~~k~~~C 125 (477)
...+-++..+++...+...+..|+.+|- ..+.+.|++|+|.|.+...|..|+|+|+ -+++|
T Consensus 127 ~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~----------------l~c~C 190 (279)
T KOG2462|consen 127 KHPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT----------------LPCEC 190 (279)
T ss_pred cCCceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC----------------CCccc
Confidence 4445667778888888889999999885 4688999999999999999999999997 57899
Q ss_pred CCCCCCCCCCCCcccCchhhhhhhhhccccccccccccccccCChhHhhhhhcc-cCCcceecC-CCCcccChhHHHHHH
Q 011807 126 PEPSCVHHHPSRALGDLTGIKKHFCRKHGERKWKCEKCSKVYAVQSDWKAHSKT-CGTREYRCD-CGTLFSRKDSFITHR 203 (477)
Q Consensus 126 ~~C~C~~~~~~k~F~~~~~L~~H~r~Htgekpf~C~~C~K~F~~~s~L~~H~r~-~gekpy~C~-Cgk~F~~~~~L~~H~ 203 (477)
.+| ||.|.+..-|+-|+|+|||||||.|..|+|+|..+++|+.|++| .+.|+|.|. |+|.|+.++.|.+|.
T Consensus 191 ~iC-------GKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ 263 (279)
T KOG2462|consen 191 GIC-------GKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHS 263 (279)
T ss_pred ccc-------cccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhh
Confidence 999 99999999999999999999999999999999999999999999 788999999 999999999999999
Q ss_pred HH
Q 011807 204 AF 205 (477)
Q Consensus 204 ~~ 205 (477)
.-
T Consensus 264 ES 265 (279)
T KOG2462|consen 264 ES 265 (279)
T ss_pred hh
Confidence 85
No 3
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.76 E-value=2.3e-19 Score=192.31 Aligned_cols=75 Identities=23% Similarity=0.514 Sum_probs=62.5
Q ss_pred ccCCCCCCCCCCCCCcccCchhhhhhhhhccccccccccccccccCChhHhhhhhcccCCcc-----eecC----CCCcc
Q 011807 123 YVCPEPSCVHHHPSRALGDLTGIKKHFCRKHGERKWKCEKCSKVYAVQSDWKAHSKTCGTRE-----YRCD----CGTLF 193 (477)
Q Consensus 123 ~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Htgekpf~C~~C~K~F~~~s~L~~H~r~~gekp-----y~C~----Cgk~F 193 (477)
.+|-+| -|+...++.|+.|+|+|+|||||+|.+|+++|+++.+|+.|+-+|..|| |.|+ |-+.|
T Consensus 606 NqCiiC-------~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kf 678 (958)
T KOG1074|consen 606 NQCIIC-------LRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKF 678 (958)
T ss_pred cceeee-------eecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhcccc
Confidence 477777 9999999999999999999999999999999999999999998865543 5564 66777
Q ss_pred cChhHHHHHHH
Q 011807 194 SRKDSFITHRA 204 (477)
Q Consensus 194 ~~~~~L~~H~~ 204 (477)
...-.|..|++
T Consensus 679 tn~V~lpQhIr 689 (958)
T KOG1074|consen 679 TNAVTLPQHIR 689 (958)
T ss_pred cccccccceEE
Confidence 66666666654
No 4
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.71 E-value=2.7e-18 Score=168.82 Aligned_cols=171 Identities=15% Similarity=0.247 Sum_probs=153.5
Q ss_pred CCCCCCCCchhhhhcCccccCCCCceecCCCCccccChhHHHHHHhhcCCCccccccccccccccCcccCCCCCCCCCCC
Q 011807 56 SLPGNPDPDAEVIALSPKTLLATNRFVCEVCNKGFQRDQNLQLHRRGHNLPWKLKQRSNKDIIKKKAYVCPEPSCVHHHP 135 (477)
Q Consensus 56 ~~~~~~~~~~~~~~~~~~~~~~~k~~~C~~Cgk~F~~~~~L~~H~r~H~~p~~c~~~~~~~~~~~k~~~C~~C~C~~~~~ 135 (477)
..+.+...+...+..|.++|+++|...|+.||.-|.++..|..|++.-+. ....+|.|..|
T Consensus 183 ~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~------------l~~n~fqC~~C------- 243 (467)
T KOG3608|consen 183 AMCTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLRRQTE------------LNTNSFQCAQC------- 243 (467)
T ss_pred hhhhhhhccHHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHHhhhh------------hcCCchHHHHH-------
Confidence 44566677888899999999999999999999999999999999987762 25669999999
Q ss_pred CCcccCchhhhhhhhhccccccccccccccccCChhHhhhhhcc-c-CCcceecC-CCCcccChhHHHHHHHH-------
Q 011807 136 SRALGDLTGIKKHFCRKHGERKWKCEKCSKVYAVQSDWKAHSKT-C-GTREYRCD-CGTLFSRKDSFITHRAF------- 205 (477)
Q Consensus 136 ~k~F~~~~~L~~H~r~Htgekpf~C~~C~K~F~~~s~L~~H~r~-~-gekpy~C~-Cgk~F~~~~~L~~H~~~------- 205 (477)
.|.|.....|+.|++.|-. -|+|+.|+......+.|..|++. | ..|||+|+ |+++|.+.+.|.+|..+
T Consensus 244 ~KrFaTeklL~~Hv~rHvn--~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS~~~y~ 321 (467)
T KOG3608|consen 244 FKRFATEKLLKSHVVRHVN--CYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHSKTVYQ 321 (467)
T ss_pred HHHHhHHHHHHHHHHHhhh--cccccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhcccccee
Confidence 9999999999999999964 59999999999999999999999 4 67999999 99999999999999985
Q ss_pred -----hhhhhcChHHHHHHHHHhccCCCCCcccCCCCCCCCCCCCCC
Q 011807 206 -----CDALAEESARLSANQLATTINTNGHPLHIASQNHSSSSLFPF 247 (477)
Q Consensus 206 -----C~k~f~~~~~L~~H~~~h~~~~~~k~~~C~~C~~~fss~~~~ 247 (477)
|..+|+...++++|++.+....++.+|.|..|.+.|.+-..+
T Consensus 322 C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L 368 (467)
T KOG3608|consen 322 CEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTSGKSL 368 (467)
T ss_pred cCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhhccchhH
Confidence 888999999999999999888889999999999998765444
No 5
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.70 E-value=2.3e-17 Score=151.58 Aligned_cols=108 Identities=27% Similarity=0.579 Sum_probs=101.5
Q ss_pred CCCceecCCCCccccChhHHHHHHhhcCCCccccccccccccccCcccCCCCCCCCCCCCCcccCchhhhhhhhhccccc
Q 011807 77 ATNRFVCEVCNKGFQRDQNLQLHRRGHNLPWKLKQRSNKDIIKKKAYVCPEPSCVHHHPSRALGDLTGIKKHFCRKHGER 156 (477)
Q Consensus 77 ~~k~~~C~~Cgk~F~~~~~L~~H~r~H~~p~~c~~~~~~~~~~~k~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Htgek 156 (477)
+...|.|.+|+|.|....-|.+|++.|. ..|.|.|..| ||.|.+...|++|+|+|+|.+
T Consensus 114 d~d~ftCrvCgK~F~lQRmlnrh~kch~--------------~vkr~lct~c-------gkgfndtfdlkrh~rthtgvr 172 (267)
T KOG3576|consen 114 DQDSFTCRVCGKKFGLQRMLNRHLKCHS--------------DVKRHLCTFC-------GKGFNDTFDLKRHTRTHTGVR 172 (267)
T ss_pred CCCeeeeehhhhhhhHHHHHHHHhhhcc--------------HHHHHHHhhc-------cCcccchhhhhhhhccccCcc
Confidence 4578999999999999999999999998 8899999999 999999999999999999999
Q ss_pred cccccccccccCChhHhhhhhcc-cC-----------CcceecC-CCCcccChhHHHHHHHH
Q 011807 157 KWKCEKCSKVYAVQSDWKAHSKT-CG-----------TREYRCD-CGTLFSRKDSFITHRAF 205 (477)
Q Consensus 157 pf~C~~C~K~F~~~s~L~~H~r~-~g-----------ekpy~C~-Cgk~F~~~~~L~~H~~~ 205 (477)
||+|..|+|.|+++-.|..|.+. || +|-|+|+ ||..-.+...+..|++.
T Consensus 173 pykc~~c~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~ 234 (267)
T KOG3576|consen 173 PYKCSLCEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKL 234 (267)
T ss_pred ccchhhhhHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHh
Confidence 99999999999999999999988 86 4779999 99999999999999986
No 6
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.58 E-value=3.2e-16 Score=168.39 Aligned_cols=92 Identities=21% Similarity=0.368 Sum_probs=76.0
Q ss_pred cccccccccccCChhHhhhhhcc-cCCcceecC-CCCcccChhHHHHHHHH------------------hhhhhcChHHH
Q 011807 157 KWKCEKCSKVYAVQSDWKAHSKT-CGTREYRCD-CGTLFSRKDSFITHRAF------------------CDALAEESARL 216 (477)
Q Consensus 157 pf~C~~C~K~F~~~s~L~~H~r~-~gekpy~C~-Cgk~F~~~~~L~~H~~~------------------C~k~f~~~~~L 216 (477)
|-+|-+|.+...-++.|+.|.|+ +|||||+|+ ||+.|.++.+||.|+-+ |.+.|...-.|
T Consensus 605 PNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~V~l 684 (958)
T KOG1074|consen 605 PNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNAVTL 684 (958)
T ss_pred ccceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhcccccccccc
Confidence 56899999999999999999999 999999999 99999999999999873 88889999999
Q ss_pred HHHHHHhccCCC-------C---CcccCCCCCCCCCCCCCCc
Q 011807 217 SANQLATTINTN-------G---HPLHIASQNHSSSSLFPFT 248 (477)
Q Consensus 217 ~~H~~~h~~~~~-------~---k~~~C~~C~~~fss~~~~~ 248 (477)
..|+|+|..... + ---+|.+|.+.|+....+.
T Consensus 685 pQhIriH~~~~~s~g~~a~e~~~~adq~~~~qk~~~~a~~f~ 726 (958)
T KOG1074|consen 685 PQHIRIHLGGQISNGGTAAEGILAADQCSSCQKTFSDARSFS 726 (958)
T ss_pred cceEEeecCCCCCCCcccccccchhcccchhhhcccccccch
Confidence 999988863221 1 1245888888876555443
No 7
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.45 E-value=3.3e-14 Score=140.25 Aligned_cols=145 Identities=22% Similarity=0.373 Sum_probs=124.6
Q ss_pred CCCCCCCCchhhhhcC--ccccCCCCceecCCCCccccChhHHHHHHhhcCCCccccccccccccccCcccCCCCCCCCC
Q 011807 56 SLPGNPDPDAEVIALS--PKTLLATNRFVCEVCNKGFQRDQNLQLHRRGHNLPWKLKQRSNKDIIKKKAYVCPEPSCVHH 133 (477)
Q Consensus 56 ~~~~~~~~~~~~~~~~--~~~~~~~k~~~C~~Cgk~F~~~~~L~~H~r~H~~p~~c~~~~~~~~~~~k~~~C~~C~C~~~ 133 (477)
.-++.-+.+...+-.| +++....++|.|..|.|.|.++..|..|++.|- .-|+|+.|
T Consensus 211 p~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHv----------------n~ykCplC----- 269 (467)
T KOG3608|consen 211 PHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHV----------------NCYKCPLC----- 269 (467)
T ss_pred chHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhh----------------hccccccc-----
Confidence 3444444444444433 445566789999999999999999999999986 57999999
Q ss_pred CCCCcccCchhhhhhhhh-ccccccccccccccccCChhHhhhhhcccCCcceecC---CCCcccChhHHHHHHHH----
Q 011807 134 HPSRALGDLTGIKKHFCR-KHGERKWKCEKCSKVYAVQSDWKAHSKTCGTREYRCD---CGTLFSRKDSFITHRAF---- 205 (477)
Q Consensus 134 ~~~k~F~~~~~L~~H~r~-Htgekpf~C~~C~K~F~~~s~L~~H~r~~gekpy~C~---Cgk~F~~~~~L~~H~~~---- 205 (477)
+.+....+.|..|++. |..+|||+|+.|++.|.+.++|.+|..+|.+.-|.|+ |..+|++...|++|.+.
T Consensus 270 --dmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg 347 (467)
T KOG3608|consen 270 --DMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHSKTVYQCEHPDCHYSVRTYTQMRRHFLEVHEG 347 (467)
T ss_pred --ccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhccccceecCCCCCcHHHHHHHHHHHHHHHhccC
Confidence 8999999999999985 8889999999999999999999999999888899996 99999999999999983
Q ss_pred ----------hhhhhcChHHHHHHHH-Hh
Q 011807 206 ----------CDALAEESARLSANQL-AT 223 (477)
Q Consensus 206 ----------C~k~f~~~~~L~~H~~-~h 223 (477)
|++.|+....|.+|.+ .|
T Consensus 348 ~np~~Y~CH~Cdr~ft~G~~L~~HL~kkH 376 (467)
T KOG3608|consen 348 NNPILYACHCCDRFFTSGKSLSAHLMKKH 376 (467)
T ss_pred CCCCceeeecchhhhccchhHHHHHHHhh
Confidence 9999999999999954 44
No 8
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.44 E-value=1.9e-14 Score=152.50 Aligned_cols=106 Identities=24% Similarity=0.538 Sum_probs=95.8
Q ss_pred ceecCCCCccccChhHHHHHHhhcCCCccccccccccccccCcccCCCCCCCCCCCCCcccCchhhhhhhhhccc-----
Q 011807 80 RFVCEVCNKGFQRDQNLQLHRRGHNLPWKLKQRSNKDIIKKKAYVCPEPSCVHHHPSRALGDLTGIKKHFCRKHG----- 154 (477)
Q Consensus 80 ~~~C~~Cgk~F~~~~~L~~H~r~H~~p~~c~~~~~~~~~~~k~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Htg----- 154 (477)
...|++|.+.+++...|+.|++.-+. ..+..|.|..| ..+|..+..|.+|+.+|.-
T Consensus 210 lltcpycdrgykrltslkeHikyrhe------------kne~nfsC~lC-------sytFAyRtQLErhm~~hkpg~dqa 270 (1007)
T KOG3623|consen 210 LLTCPYCDRGYKRLTSLKEHIKYRHE------------KNEPNFSCMLC-------SYTFAYRTQLERHMQLHKPGGDQA 270 (1007)
T ss_pred hhcchhHHHHHHHHHHHHHHHHHHHh------------hCCCCCcchhh-------hhhhhhHHHHHHHHHhhcCCCccc
Confidence 46799999999999999999986541 25567999999 9999999999999998852
Q ss_pred --------cccccccccccccCChhHhhhhhcc-cCCcceecC-CCCcccChhHHHHHHH
Q 011807 155 --------ERKWKCEKCSKVYAVQSDWKAHSKT-CGTREYRCD-CGTLFSRKDSFITHRA 204 (477)
Q Consensus 155 --------ekpf~C~~C~K~F~~~s~L~~H~r~-~gekpy~C~-Cgk~F~~~~~L~~H~~ 204 (477)
.|.|+|.+|+|+|..+-.|+.|+|| .|||||.|+ |+|+|+...++..|+.
T Consensus 271 ~sltqsa~lRKFKCtECgKAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmS 330 (1007)
T KOG3623|consen 271 ISLTQSALLRKFKCTECGKAFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMS 330 (1007)
T ss_pred ccccchhhhccccccccchhhhhHHHHHhhheeecCCCCcCCcccccccccCCccccccc
Confidence 4689999999999999999999999 899999999 9999999999999986
No 9
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.37 E-value=1.2e-13 Score=127.29 Aligned_cols=106 Identities=18% Similarity=0.344 Sum_probs=91.3
Q ss_pred ccCcccCCCCCCCCCCCCCcccCchhhhhhhhhccccccccccccccccCChhHhhhhhcc-cCCcceecC-CCCcccCh
Q 011807 119 KKKAYVCPEPSCVHHHPSRALGDLTGIKKHFCRKHGERKWKCEKCSKVYAVQSDWKAHSKT-CGTREYRCD-CGTLFSRK 196 (477)
Q Consensus 119 ~~k~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Htgekpf~C~~C~K~F~~~s~L~~H~r~-~gekpy~C~-Cgk~F~~~ 196 (477)
+...|.|.+| +|.|.-..-|.+|++.|...|.|.|..|||.|...-+|++|+|+ +|.+||+|. |+|.|..+
T Consensus 114 d~d~ftCrvC-------gK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqr 186 (267)
T KOG3576|consen 114 DQDSFTCRVC-------GKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQR 186 (267)
T ss_pred CCCeeeeehh-------hhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhh
Confidence 5678999999 99999999999999999999999999999999999999999999 999999999 99999999
Q ss_pred hHHHHHHHH-hhhhhcChHHHHHHHHHhccCCCCCcccCCCCCCCC
Q 011807 197 DSFITHRAF-CDALAEESARLSANQLATTINTNGHPLHIASQNHSS 241 (477)
Q Consensus 197 ~~L~~H~~~-C~k~f~~~~~L~~H~~~h~~~~~~k~~~C~~C~~~f 241 (477)
-+|..|.+. ++..-.... ....+|.|.|+.||.+.
T Consensus 187 csleshl~kvhgv~~~yay----------kerr~kl~vcedcg~t~ 222 (267)
T KOG3576|consen 187 CSLESHLKKVHGVQHQYAY----------KERRAKLYVCEDCGYTS 222 (267)
T ss_pred ccHHHHHHHHcCchHHHHH----------HHhhhheeeecccCCCC
Confidence 999999874 443221111 12346789999999874
No 10
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.32 E-value=3.1e-13 Score=143.44 Aligned_cols=80 Identities=23% Similarity=0.580 Sum_probs=75.9
Q ss_pred cccCcccCCCCCCCCCCCCCcccCchhhhhhhhhccccccccccccccccCChhHhhhhhcc-cCCcceecC-CCCcccC
Q 011807 118 IKKKAYVCPEPSCVHHHPSRALGDLTGIKKHFCRKHGERKWKCEKCSKVYAVQSDWKAHSKT-CGTREYRCD-CGTLFSR 195 (477)
Q Consensus 118 ~~~k~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Htgekpf~C~~C~K~F~~~s~L~~H~r~-~gekpy~C~-Cgk~F~~ 195 (477)
..+-.|.|+.| +|.|...+.|.+|+-.|+|.|||+|.+|.|+|..+-.|..|+|. .|||||.|+ |+|+|+.
T Consensus 890 te~gmyaCDqC-------DK~FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQCdKClKRFSH 962 (1007)
T KOG3623|consen 890 TEDGMYACDQC-------DKAFQKQSSLARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQCDKCLKRFSH 962 (1007)
T ss_pred CccccchHHHH-------HHHHHhhHHHHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhhhccCCCcchhhhhhhhccc
Confidence 45668999999 99999999999999999999999999999999999999999999 899999999 9999999
Q ss_pred hhHHHHHHH
Q 011807 196 KDSFITHRA 204 (477)
Q Consensus 196 ~~~L~~H~~ 204 (477)
..++..||.
T Consensus 963 SGSYSQHMN 971 (1007)
T KOG3623|consen 963 SGSYSQHMN 971 (1007)
T ss_pred ccchHhhhc
Confidence 999988874
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.06 E-value=2.1e-10 Score=122.94 Aligned_cols=104 Identities=23% Similarity=0.463 Sum_probs=87.7
Q ss_pred CCceecCCCCccccChhHHHHHHhhcCCCccccccccccccccCcccCCCCCCCCCCCCCcccCchhhhhhhhhcccccc
Q 011807 78 TNRFVCEVCNKGFQRDQNLQLHRRGHNLPWKLKQRSNKDIIKKKAYVCPEPSCVHHHPSRALGDLTGIKKHFCRKHGERK 157 (477)
Q Consensus 78 ~k~~~C~~Cgk~F~~~~~L~~H~r~H~~p~~c~~~~~~~~~~~k~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Htgekp 157 (477)
++.+.|+.|++.|. ...|..|+++|+ +++.|+ | ++.+ .+..|..|+++|..+|+
T Consensus 451 ~~H~~C~~Cgk~f~-~s~LekH~~~~H----------------kpv~Cp-C-------g~~~-~R~~L~~H~~thCp~Kp 504 (567)
T PLN03086 451 KNHVHCEKCGQAFQ-QGEMEKHMKVFH----------------EPLQCP-C-------GVVL-EKEQMVQHQASTCPLRL 504 (567)
T ss_pred ccCccCCCCCCccc-hHHHHHHHHhcC----------------CCccCC-C-------CCCc-chhHHHhhhhccCCCCc
Confidence 45678999999996 678999999875 689998 7 7655 66899999999999999
Q ss_pred ccccccccccC----------ChhHhhhhhcccCCcceecC-CCCcccChhHHHHHHHHhhh
Q 011807 158 WKCEKCSKVYA----------VQSDWKAHSKTCGTREYRCD-CGTLFSRKDSFITHRAFCDA 208 (477)
Q Consensus 158 f~C~~C~K~F~----------~~s~L~~H~r~~gekpy~C~-Cgk~F~~~~~L~~H~~~C~k 208 (477)
+.|.+|++.|. ..+.|..|+.++|.+++.|. |++.|..+ .|..|+..|+.
T Consensus 505 i~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~CG~rt~~C~~Cgk~Vrlr-dm~~H~~~~h~ 565 (567)
T PLN03086 505 ITCRFCGDMVQAGGSAMDVRDRLRGMSEHESICGSRTAPCDSCGRSVMLK-EMDIHQIAVHQ 565 (567)
T ss_pred eeCCCCCCccccCccccchhhhhhhHHHHHHhcCCcceEccccCCeeeeh-hHHHHHHHhhc
Confidence 99999999995 24589999999999999999 99999765 67888877654
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.83 E-value=7.3e-09 Score=111.18 Aligned_cols=136 Identities=17% Similarity=0.244 Sum_probs=92.9
Q ss_pred ceecCCCCccccChhHHHHHHhhcC-CCccccc--cccc--cccccCcccCCCCCCCCCCCCCcccCchhhhhhhhhccc
Q 011807 80 RFVCEVCNKGFQRDQNLQLHRRGHN-LPWKLKQ--RSNK--DIIKKKAYVCPEPSCVHHHPSRALGDLTGIKKHFCRKHG 154 (477)
Q Consensus 80 ~~~C~~Cgk~F~~~~~L~~H~r~H~-~p~~c~~--~~~~--~~~~~k~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Htg 154 (477)
.-.|..|..... ..+|..|..... ....|.. |... ...-++.+.|+.| ++.|. ...|+.|+++|+
T Consensus 407 ~V~C~NC~~~i~-l~~l~lHe~~C~r~~V~Cp~~~Cg~v~~r~el~~H~~C~~C-------gk~f~-~s~LekH~~~~H- 476 (567)
T PLN03086 407 TVECRNCKHYIP-SRSIALHEAYCSRHNVVCPHDGCGIVLRVEEAKNHVHCEKC-------GQAFQ-QGEMEKHMKVFH- 476 (567)
T ss_pred eEECCCCCCccc-hhHHHHHHhhCCCcceeCCcccccceeeccccccCccCCCC-------CCccc-hHHHHHHHHhcC-
Confidence 457999987654 567888886554 1223431 2211 1223567899999 88886 678999999986
Q ss_pred cccccccccccccCChhHhhhhhcc-cCCcceecC-CCCcccChhH---HHHHHHHhhhhhcChHHHHHHHHHhccCCCC
Q 011807 155 ERKWKCEKCSKVYAVQSDWKAHSKT-CGTREYRCD-CGTLFSRKDS---FITHRAFCDALAEESARLSANQLATTINTNG 229 (477)
Q Consensus 155 ekpf~C~~C~K~F~~~s~L~~H~r~-~gekpy~C~-Cgk~F~~~~~---L~~H~~~C~k~f~~~~~L~~H~~~h~~~~~~ 229 (477)
+++.|+ |++.+ .+..|..|+++ +.+|++.|. |++.|..... +.. ....|..|..+ .+.
T Consensus 477 -kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d----------~~s~Lt~HE~~----CG~ 539 (567)
T PLN03086 477 -EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRD----------RLRGMSEHESI----CGS 539 (567)
T ss_pred -CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhh----------hhhhHHHHHHh----cCC
Confidence 899999 99866 67899999998 899999999 9999953210 000 11233344433 356
Q ss_pred CcccCCCCCCCCC
Q 011807 230 HPLHIASQNHSSS 242 (477)
Q Consensus 230 k~~~C~~C~~~fs 242 (477)
+++.|..|++.+.
T Consensus 540 rt~~C~~Cgk~Vr 552 (567)
T PLN03086 540 RTAPCDSCGRSVM 552 (567)
T ss_pred cceEccccCCeee
Confidence 6899999998754
No 13
>PHA00733 hypothetical protein
Probab=98.81 E-value=2.9e-09 Score=94.16 Aligned_cols=79 Identities=15% Similarity=0.288 Sum_probs=65.5
Q ss_pred ccCcccCCCCCCCCCCCCCcccCchhhhhh--hh---hccccccccccccccccCChhHhhhhhcccCCcceecC-CCCc
Q 011807 119 KKKAYVCPEPSCVHHHPSRALGDLTGIKKH--FC---RKHGERKWKCEKCSKVYAVQSDWKAHSKTCGTREYRCD-CGTL 192 (477)
Q Consensus 119 ~~k~~~C~~C~C~~~~~~k~F~~~~~L~~H--~r---~Htgekpf~C~~C~K~F~~~s~L~~H~r~~gekpy~C~-Cgk~ 192 (477)
..+++.|.+| .+.|.....|..+ ++ .+.+++||+|++|++.|.....|..|++.+ +++|.|. |++.
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 5688999998 7777776666555 21 334588999999999999999999999875 4689999 9999
Q ss_pred ccChhHHHHHHHH
Q 011807 193 FSRKDSFITHRAF 205 (477)
Q Consensus 193 F~~~~~L~~H~~~ 205 (477)
|.....|++|+..
T Consensus 109 F~~~~sL~~H~~~ 121 (128)
T PHA00733 109 FRNTDSTLDHVCK 121 (128)
T ss_pred cCCHHHHHHHHHH
Confidence 9999999999863
No 14
>PHA00733 hypothetical protein
Probab=98.72 E-value=6.7e-09 Score=91.82 Aligned_cols=96 Identities=17% Similarity=0.142 Sum_probs=75.3
Q ss_pred hhhhcCccccCCCCceecCCCCccccChhHHHHH--HhhcCCCccccccccccccccCcccCCCCCCCCCCCCCcccCch
Q 011807 66 EVIALSPKTLLATNRFVCEVCNKGFQRDQNLQLH--RRGHNLPWKLKQRSNKDIIKKKAYVCPEPSCVHHHPSRALGDLT 143 (477)
Q Consensus 66 ~~~~~~~~~~~~~k~~~C~~Cgk~F~~~~~L~~H--~r~H~~p~~c~~~~~~~~~~~k~~~C~~C~C~~~~~~k~F~~~~ 143 (477)
+.+........+.+++.|.+|.+.|.....|..| ++.|. ....+++|.|+.| ++.|....
T Consensus 26 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~-----------~~~~~kPy~C~~C-------gk~Fss~s 87 (128)
T PHA00733 26 EELKRYHSLTPEQKRLIRAVVKTLIYNPQLLDESSYLYKLL-----------TSKAVSPYVCPLC-------LMPFSSSV 87 (128)
T ss_pred HHhhhhhcCChhhhhHHHHHHhhhccChhhhcchHHHHhhc-----------ccCCCCCccCCCC-------CCcCCCHH
Confidence 3344444444556889999999999887777666 22221 0125789999999 99999999
Q ss_pred hhhhhhhhccccccccccccccccCChhHhhhhhcc-cC
Q 011807 144 GIKKHFCRKHGERKWKCEKCSKVYAVQSDWKAHSKT-CG 181 (477)
Q Consensus 144 ~L~~H~r~Htgekpf~C~~C~K~F~~~s~L~~H~r~-~g 181 (477)
.|..|++.| +++|.|.+|++.|.....|.+|+.. |+
T Consensus 88 ~L~~H~r~h--~~~~~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 88 SLKQHIRYT--EHSKVCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred HHHHHHhcC--CcCccCCCCCCccCCHHHHHHHHHHhcC
Confidence 999999987 4679999999999999999999987 65
No 15
>PHA02768 hypothetical protein; Provisional
Probab=98.53 E-value=2.7e-08 Score=74.01 Aligned_cols=42 Identities=14% Similarity=0.369 Sum_probs=24.9
Q ss_pred ccCCCCCCCCCCCCCcccCchhhhhhhhhccccccccccccccccCChhHh
Q 011807 123 YVCPEPSCVHHHPSRALGDLTGIKKHFCRKHGERKWKCEKCSKVYAVQSDW 173 (477)
Q Consensus 123 ~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Htgekpf~C~~C~K~F~~~s~L 173 (477)
|.|++| ++.|.....|..|+++|+ ++|+|..|+|.|.+.+.|
T Consensus 6 y~C~~C-------GK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 6 YECPIC-------GEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred cCcchh-------CCeeccHHHHHHHHHhcC--CcccCCcccceeccccee
Confidence 556665 666666666666666665 456666666666555444
No 16
>PHA02768 hypothetical protein; Provisional
Probab=98.35 E-value=1.5e-07 Score=70.09 Aligned_cols=43 Identities=16% Similarity=0.502 Sum_probs=39.3
Q ss_pred cccccccccccCChhHhhhhhcccCCcceecC-CCCcccChhHHH
Q 011807 157 KWKCEKCSKVYAVQSDWKAHSKTCGTREYRCD-CGTLFSRKDSFI 200 (477)
Q Consensus 157 pf~C~~C~K~F~~~s~L~~H~r~~gekpy~C~-Cgk~F~~~~~L~ 200 (477)
-|+|++|||.|.+.++|..|+++|. ++|+|. |++.|.+.+.|.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~-k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN-TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC-CcccCCcccceecccceeE
Confidence 3899999999999999999999965 899999 999999988764
No 17
>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=98.29 E-value=2.5e-07 Score=58.70 Aligned_cols=26 Identities=27% Similarity=0.778 Sum_probs=22.4
Q ss_pred hhhhhhhhccccccccccccccccCC
Q 011807 144 GIKKHFCRKHGERKWKCEKCSKVYAV 169 (477)
Q Consensus 144 ~L~~H~r~Htgekpf~C~~C~K~F~~ 169 (477)
+|.+|+++|+++|||+|++|+|.|.+
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEESS
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeCc
Confidence 47889999999999999999998863
No 18
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.16 E-value=3.8e-07 Score=92.78 Aligned_cols=81 Identities=21% Similarity=0.528 Sum_probs=63.2
Q ss_pred cccCCCCCCCCCCCCCcccCchhhhhhhhhccccccccccccccccCChhHhhhhhcccCCc------------------
Q 011807 122 AYVCPEPSCVHHHPSRALGDLTGIKKHFCRKHGERKWKCEKCSKVYAVQSDWKAHSKTCGTR------------------ 183 (477)
Q Consensus 122 ~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Htgekpf~C~~C~K~F~~~s~L~~H~r~~gek------------------ 183 (477)
.|.|..| ...|.+...|.+|+..-.-.--|+|++|+|.|.-..+|..|+|+|.-|
T Consensus 267 dyiCqLC-------K~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~r 339 (500)
T KOG3993|consen 267 DYICQLC-------KEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETR 339 (500)
T ss_pred HHHHHHH-------HHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhh
Confidence 4999999 889999999999986544444599999999999999999999986321
Q ss_pred ----------------ceecC-CCCcccChhHHHHHHHHhhhh
Q 011807 184 ----------------EYRCD-CGTLFSRKDSFITHRAFCDAL 209 (477)
Q Consensus 184 ----------------py~C~-Cgk~F~~~~~L~~H~~~C~k~ 209 (477)
-|.|. |+|.|.+...|++|+..|.+.
T Consensus 340 ae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~ 382 (500)
T KOG3993|consen 340 AEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRA 382 (500)
T ss_pred hhhhhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhcc
Confidence 26677 777777777777776655444
No 19
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.05 E-value=1e-06 Score=89.70 Aligned_cols=91 Identities=21% Similarity=0.258 Sum_probs=63.3
Q ss_pred CCCCCCCCchhhhhcCccccCCCCceecCCCCccccChhHHHHHHhhcCC-Cccc--cccccc----------c------
Q 011807 56 SLPGNPDPDAEVIALSPKTLLATNRFVCEVCNKGFQRDQNLQLHRRGHNL-PWKL--KQRSNK----------D------ 116 (477)
Q Consensus 56 ~~~~~~~~~~~~~~~~~~~~~~~k~~~C~~Cgk~F~~~~~L~~H~r~H~~-p~~c--~~~~~~----------~------ 116 (477)
++|...+.+.-.++.|+=.-.....|+|++|+|+|+...||..|+|-|.. +.-- .....+ +
T Consensus 271 qLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~rsg~ 350 (500)
T KOG3993|consen 271 QLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAERSGD 350 (500)
T ss_pred HHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccccCC
Confidence 45556666666677665544445579999999999999999999999961 1000 000000 0
Q ss_pred ccccCcccCCCCCCCCCCCCCcccCchhhhhhhhhcc
Q 011807 117 IIKKKAYVCPEPSCVHHHPSRALGDLTGIKKHFCRKH 153 (477)
Q Consensus 117 ~~~~k~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Ht 153 (477)
...+..|.|.+| +|.|.+...|+.|+.+|.
T Consensus 351 dss~gi~~C~~C-------~KkFrRqAYLrKHqlthq 380 (500)
T KOG3993|consen 351 DSSSGIFSCHTC-------GKKFRRQAYLRKHQLTHQ 380 (500)
T ss_pred cccCceeecHHh-------hhhhHHHHHHHHhHHhhh
Confidence 023347999999 999999999999987775
No 20
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.82 E-value=2e-05 Score=77.83 Aligned_cols=24 Identities=29% Similarity=0.701 Sum_probs=14.6
Q ss_pred CCceecCC--CCccccChhHHHHHHh
Q 011807 78 TNRFVCEV--CNKGFQRDQNLQLHRR 101 (477)
Q Consensus 78 ~k~~~C~~--Cgk~F~~~~~L~~H~r 101 (477)
+|+|+|++ |.|.|+....|+.|+.
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~l 372 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHML 372 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhh
Confidence 36666655 6666666666666654
No 21
>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=97.78 E-value=9.9e-06 Score=51.35 Aligned_cols=24 Identities=38% Similarity=0.951 Sum_probs=22.0
Q ss_pred Hhhhhhcc-cCCcceecC-CCCcccC
Q 011807 172 DWKAHSKT-CGTREYRCD-CGTLFSR 195 (477)
Q Consensus 172 ~L~~H~r~-~gekpy~C~-Cgk~F~~ 195 (477)
+|.+|+++ +++|||.|+ |++.|.+
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 58999999 999999999 9999974
No 22
>PHA00616 hypothetical protein
Probab=97.73 E-value=9.5e-06 Score=57.66 Aligned_cols=36 Identities=17% Similarity=0.215 Sum_probs=21.7
Q ss_pred cccCCCCCCCCCCCCCcccCchhhhhhhhhccccccccccccc
Q 011807 122 AYVCPEPSCVHHHPSRALGDLTGIKKHFCRKHGERKWKCEKCS 164 (477)
Q Consensus 122 ~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Htgekpf~C~~C~ 164 (477)
+|+|..| |+.|..+..|..|++.|++++++.|+.--
T Consensus 1 pYqC~~C-------G~~F~~~s~l~~H~r~~hg~~~~~~~~~y 36 (44)
T PHA00616 1 MYQCLRC-------GGIFRKKKEVIEHLLSVHKQNKLTLEYFY 36 (44)
T ss_pred CCccchh-------hHHHhhHHHHHHHHHHhcCCCccceeEEE
Confidence 3566666 66666666666666666666666665433
No 23
>PHA00732 hypothetical protein
Probab=97.68 E-value=2.2e-05 Score=63.46 Aligned_cols=45 Identities=27% Similarity=0.402 Sum_probs=27.4
Q ss_pred cccCCCCCCCCCCCCCcccCchhhhhhhhh-ccccccccccccccccCChhHhhhhhcc
Q 011807 122 AYVCPEPSCVHHHPSRALGDLTGIKKHFCR-KHGERKWKCEKCSKVYAVQSDWKAHSKT 179 (477)
Q Consensus 122 ~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~-Htgekpf~C~~C~K~F~~~s~L~~H~r~ 179 (477)
+|.|..| ++.|.....|+.|++. |.+ +.|++|++.|. .|..|.++
T Consensus 1 py~C~~C-------gk~F~s~s~Lk~H~r~~H~~---~~C~~CgKsF~---~l~~H~~~ 46 (79)
T PHA00732 1 MFKCPIC-------GFTTVTLFALKQHARRNHTL---TKCPVCNKSYR---RLNQHFYS 46 (79)
T ss_pred CccCCCC-------CCccCCHHHHHHHhhcccCC---CccCCCCCEeC---Chhhhhcc
Confidence 3566666 6666666666666663 432 46666666665 35566654
No 24
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.56 E-value=2.4e-05 Score=77.29 Aligned_cols=50 Identities=28% Similarity=0.624 Sum_probs=35.1
Q ss_pred cccccccc--cccccCChhHhhhhhcc-c-------------------CCcceecC-CCCcccChhHHHHHHH
Q 011807 155 ERKWKCEK--CSKVYAVQSDWKAHSKT-C-------------------GTREYRCD-CGTLFSRKDSFITHRA 204 (477)
Q Consensus 155 ekpf~C~~--C~K~F~~~s~L~~H~r~-~-------------------gekpy~C~-Cgk~F~~~~~L~~H~~ 204 (477)
+|||+|++ |.|.|+....|+.|+.- | ..|||+|+ |+|+|.....|+-|++
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 46666655 66666666666666543 3 24888998 9999888888888764
No 25
>PHA00732 hypothetical protein
Probab=97.41 E-value=0.00014 Score=58.87 Aligned_cols=48 Identities=23% Similarity=0.436 Sum_probs=40.2
Q ss_pred ceecCCCCccccChhHHHHHHhh-cCCCccccccccccccccCcccCCCCCCCCCCCCCcccCchhhhhhhhhccc
Q 011807 80 RFVCEVCNKGFQRDQNLQLHRRG-HNLPWKLKQRSNKDIIKKKAYVCPEPSCVHHHPSRALGDLTGIKKHFCRKHG 154 (477)
Q Consensus 80 ~~~C~~Cgk~F~~~~~L~~H~r~-H~~p~~c~~~~~~~~~~~k~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Htg 154 (477)
+|.|.+|++.|.+...|..|++. |. ++.|+.| ++.|. .|..|++.+..
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~-----------------~~~C~~C-------gKsF~---~l~~H~~~~~~ 49 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT-----------------LTKCPVC-------NKSYR---RLNQHFYSQYD 49 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC-----------------CCccCCC-------CCEeC---ChhhhhcccCC
Confidence 58999999999999999999985 53 3589999 99997 58889866553
No 26
>PHA00616 hypothetical protein
Probab=97.30 E-value=5.8e-05 Score=53.69 Aligned_cols=32 Identities=9% Similarity=0.369 Sum_probs=30.6
Q ss_pred cccccccccccCChhHhhhhhcc-cCCcceecC
Q 011807 157 KWKCEKCSKVYAVQSDWKAHSKT-CGTREYRCD 188 (477)
Q Consensus 157 pf~C~~C~K~F~~~s~L~~H~r~-~gekpy~C~ 188 (477)
||+|..||+.|..+++|.+|++. |+++++.|+
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcccee
Confidence 69999999999999999999999 999999986
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=97.17 E-value=0.00046 Score=51.61 Aligned_cols=52 Identities=27% Similarity=0.515 Sum_probs=33.5
Q ss_pred ceecCCCCccccChhHHHHHHhhcCCCccccccccccccccCcccCCCCCCCCCCCCCcccCchhhhhhhhhcc
Q 011807 80 RFVCEVCNKGFQRDQNLQLHRRGHNLPWKLKQRSNKDIIKKKAYVCPEPSCVHHHPSRALGDLTGIKKHFCRKH 153 (477)
Q Consensus 80 ~~~C~~Cgk~F~~~~~L~~H~r~H~~p~~c~~~~~~~~~~~k~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Ht 153 (477)
.|.|++|++. .+...|..|....+. ...+.+.|++| ...+. .+|..|+..++
T Consensus 2 ~f~CP~C~~~-~~~~~L~~H~~~~H~------------~~~~~v~CPiC-------~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPYCGKG-FSESSLVEHCEDEHR------------SESKNVVCPIC-------SSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCCCCCc-cCHHHHHHHHHhHCc------------CCCCCccCCCc-------hhhhh--hHHHHHHHHhc
Confidence 4788888884 456778888665441 13456888888 55433 36777776654
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=97.13 E-value=0.00026 Score=43.14 Aligned_cols=23 Identities=39% Similarity=0.895 Sum_probs=21.6
Q ss_pred eecCCCCccccChhHHHHHHhhc
Q 011807 81 FVCEVCNKGFQRDQNLQLHRRGH 103 (477)
Q Consensus 81 ~~C~~Cgk~F~~~~~L~~H~r~H 103 (477)
|+|++|++.|.+...|..|++.|
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
>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=96.77 E-value=0.00096 Score=40.57 Aligned_cols=20 Identities=40% Similarity=0.906 Sum_probs=11.2
Q ss_pred eecC-CCCcccChhHHHHHHH
Q 011807 185 YRCD-CGTLFSRKDSFITHRA 204 (477)
Q Consensus 185 y~C~-Cgk~F~~~~~L~~H~~ 204 (477)
|+|+ |++.|.+...|++|++
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~ 21 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMR 21 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHh
Confidence 4555 5555555555555554
No 30
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=96.64 E-value=0.0014 Score=49.00 Aligned_cols=47 Identities=19% Similarity=0.369 Sum_probs=23.8
Q ss_pred ccCCCCCCCCCCCCCcccCchhhhhhhhhcc-cc-ccccccccccccCChhHhhhhhcc
Q 011807 123 YVCPEPSCVHHHPSRALGDLTGIKKHFCRKH-GE-RKWKCEKCSKVYAVQSDWKAHSKT 179 (477)
Q Consensus 123 ~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Ht-ge-kpf~C~~C~K~F~~~s~L~~H~r~ 179 (477)
|.|++| ++ ..+...|..|....+ .+ +.+.|++|...+. .+|..|+..
T Consensus 3 f~CP~C-------~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~ 51 (54)
T PF05605_consen 3 FTCPYC-------GK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNS 51 (54)
T ss_pred cCCCCC-------CC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHH
Confidence 556665 55 233455666654422 22 3456666665433 255555554
No 31
>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=96.55 E-value=0.0017 Score=39.30 Aligned_cols=24 Identities=38% Similarity=0.888 Sum_probs=20.3
Q ss_pred eecCCCCccccChhHHHHHHhhcC
Q 011807 81 FVCEVCNKGFQRDQNLQLHRRGHN 104 (477)
Q Consensus 81 ~~C~~Cgk~F~~~~~L~~H~r~H~ 104 (477)
|.|++|++.|.+...|..|++.|+
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 789999999999999999998864
No 32
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.50 E-value=0.0012 Score=54.68 Aligned_cols=72 Identities=18% Similarity=0.450 Sum_probs=17.7
Q ss_pred ecCCCCccccChhHHHHHHhhcCCCccccccccccccccCcccCCCCCCCCCCCCCcccCchhhhhhhhhcccccccccc
Q 011807 82 VCEVCNKGFQRDQNLQLHRRGHNLPWKLKQRSNKDIIKKKAYVCPEPSCVHHHPSRALGDLTGIKKHFCRKHGERKWKCE 161 (477)
Q Consensus 82 ~C~~Cgk~F~~~~~L~~H~r~H~~p~~c~~~~~~~~~~~k~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Htgekpf~C~ 161 (477)
+|..|+..|.....|..|+...+ +-. ... ...+.....+..+.+... ...|.|.
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H--------------~~~---~~~--------~~~l~~~~~~~~~~~~~~-~~~~~C~ 54 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKH--------------GFD---IPD--------QKYLVDPNRLLNYLRKKV-KESFRCP 54 (100)
T ss_dssp --------------------------------------------------------------------------SSEEBS
T ss_pred Ccccccccccccccccccccccc--------------ccc---ccc--------cccccccccccccccccc-CCCCCCC
Confidence 48889999988888888886554 100 000 111222333333333221 2257788
Q ss_pred ccccccCChhHhhhhhcc
Q 011807 162 KCSKVYAVQSDWKAHSKT 179 (477)
Q Consensus 162 ~C~K~F~~~s~L~~H~r~ 179 (477)
+|++.|.....|..|++.
T Consensus 55 ~C~~~f~s~~~l~~Hm~~ 72 (100)
T PF12756_consen 55 YCNKTFRSREALQEHMRS 72 (100)
T ss_dssp SSS-EESSHHHHHHHHHH
T ss_pred ccCCCCcCHHHHHHHHcC
Confidence 888888888888888776
No 33
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=96.44 E-value=0.0021 Score=40.69 Aligned_cols=25 Identities=36% Similarity=0.721 Sum_probs=23.5
Q ss_pred ceecCCCCccccChhHHHHHHhhcC
Q 011807 80 RFVCEVCNKGFQRDQNLQLHRRGHN 104 (477)
Q Consensus 80 ~~~C~~Cgk~F~~~~~L~~H~r~H~ 104 (477)
+|+|.+|++.|.+...|..|++.|.
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 34
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.31 E-value=0.0071 Score=66.51 Aligned_cols=146 Identities=12% Similarity=0.171 Sum_probs=85.8
Q ss_pred eecCCCCccc---------------cChhHHHHHHhhcCCCccccccccccccccCcccCCCCCCCCCCCCCcccCchhh
Q 011807 81 FVCEVCNKGF---------------QRDQNLQLHRRGHNLPWKLKQRSNKDIIKKKAYVCPEPSCVHHHPSRALGDLTGI 145 (477)
Q Consensus 81 ~~C~~Cgk~F---------------~~~~~L~~H~r~H~~p~~c~~~~~~~~~~~k~~~C~~C~C~~~~~~k~F~~~~~L 145 (477)
+.|.+|.+.| .+...|+.|++.-+..+.|..|.. ..+.|.|+ .|.| ....|
T Consensus 100 ~~C~~C~~~~~~~~~~~~~~~c~~~~s~~~Lk~H~~~~H~~~~c~lC~~----~~kif~~e---------~k~Y-t~~el 165 (669)
T KOG2231|consen 100 HSCHICDRRFRALYNKKECLHCTEFKSVENLKNHMRDQHKLHLCSLCLQ----NLKIFINE---------RKLY-TRAEL 165 (669)
T ss_pred hhcCccccchhhhcccCCCccccchhHHHHHHHHHHHhhhhhccccccc----cceeeeee---------eehe-hHHHH
Confidence 5566666665 377889999965543333333321 22333331 3333 45667
Q ss_pred hhhhhhcc-ccc----cccccccccccCChhHhhhhhcccCCcceec---C-CCCcccChhHHHHHHHH----hh-----
Q 011807 146 KKHFCRKH-GER----KWKCEKCSKVYAVQSDWKAHSKTCGTREYRC---D-CGTLFSRKDSFITHRAF----CD----- 207 (477)
Q Consensus 146 ~~H~r~Ht-gek----pf~C~~C~K~F~~~s~L~~H~r~~gekpy~C---~-Cgk~F~~~~~L~~H~~~----C~----- 207 (477)
..|+..-- +++ .-.|..|...|-....|.+|++.+.+--..| + +..-|.....|..|-+. |.
T Consensus 166 ~~h~~~gd~d~~s~rGhp~C~~C~~~fld~~el~rH~~~~h~~chfC~~~~~~neyy~~~~dLe~HfR~~HflCE~~~C~ 245 (669)
T KOG2231|consen 166 NLHLMFGDPDDESCRGHPLCKFCHERFLDDDELYRHLRFDHEFCHFCDYKTGQNEYYNDYDDLEEHFRKGHFLCEEEFCR 245 (669)
T ss_pred HHHHhcCCCccccccCCccchhhhhhhccHHHHHHhhccceeheeecCcccccchhcccchHHHHHhhhcCccccccccc
Confidence 77765421 222 2579999999999999999999832333344 2 56678889999999984 33
Q ss_pred -hhhcChHHHHHHHHHhc-cCCCCCcccCC--CCCCC
Q 011807 208 -ALAEESARLSANQLATT-INTNGHPLHIA--SQNHS 240 (477)
Q Consensus 208 -k~f~~~~~L~~H~~~h~-~~~~~k~~~C~--~C~~~ 240 (477)
+.|.....+..+++.|. .+..++.|.|. .-|+.
T Consensus 246 ~~~f~~~~~~ei~lk~~~~~~~~e~~~~~~~~r~Gr~ 282 (669)
T KOG2231|consen 246 TKKFYVAFELEIELKAHNRFIQHEKCYICRPSRPGRP 282 (669)
T ss_pred cceeeehhHHHHHHHhhccccchheeccCCcccCCCC
Confidence 23344434444444332 23446666664 44444
No 35
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=96.20 E-value=0.0051 Score=63.53 Aligned_cols=125 Identities=18% Similarity=0.248 Sum_probs=92.6
Q ss_pred CceecCCCCccccChhHHHHHHh--hcCCCcccccccccccccc--CcccCC--CCCCCCCCCCCcccCchhhhhhhhhc
Q 011807 79 NRFVCEVCNKGFQRDQNLQLHRR--GHNLPWKLKQRSNKDIIKK--KAYVCP--EPSCVHHHPSRALGDLTGIKKHFCRK 152 (477)
Q Consensus 79 k~~~C~~Cgk~F~~~~~L~~H~r--~H~~p~~c~~~~~~~~~~~--k~~~C~--~C~C~~~~~~k~F~~~~~L~~H~r~H 152 (477)
.++.|..|.+.|.....|..|.+ .|. .+ +++.|+ .| ++.|.+...+..|...|
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~--------------~~~~~~~~~p~~~~-------~~~~~~~~~~~~~~~~~ 346 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHS--------------GESLKPFSCPYSLC-------GKLFSRNDALKRHILLH 346 (467)
T ss_pred cCCCCccccCCccccccccccccccccc--------------cccCCceeeeccCC-------CccccccccccCCcccc
Confidence 47899999999999999999999 676 67 899998 67 89999999999999999
Q ss_pred cccccccccc--cccccCChhHhh-----hhhcc-cCCcceecC---CCCcccChhHHHHHHHH-------------hhh
Q 011807 153 HGERKWKCEK--CSKVYAVQSDWK-----AHSKT-CGTREYRCD---CGTLFSRKDSFITHRAF-------------CDA 208 (477)
Q Consensus 153 tgekpf~C~~--C~K~F~~~s~L~-----~H~r~-~gekpy~C~---Cgk~F~~~~~L~~H~~~-------------C~k 208 (477)
++.++++|.. |.+.+.....-. ..... ...+.+.|. |-..+.+...+..|... |.+
T Consensus 347 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 426 (467)
T COG5048 347 TSISPAKEKLLNSSSKFSPLLNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSK 426 (467)
T ss_pred cCCCccccccccCccccccccCCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchh
Confidence 9988888754 666655544421 11112 455667774 77777776666666542 777
Q ss_pred hhcChHHHHHHHHHhc
Q 011807 209 LAEESARLSANQLATT 224 (477)
Q Consensus 209 ~f~~~~~L~~H~~~h~ 224 (477)
.|.....+..|++.+.
T Consensus 427 ~~~~~~~~~~~~~~~~ 442 (467)
T COG5048 427 SFNRHYNLIPHKKIHT 442 (467)
T ss_pred hccCcccccccccccc
Confidence 7777777777776664
No 36
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.06 E-value=0.0039 Score=51.56 Aligned_cols=71 Identities=15% Similarity=0.275 Sum_probs=19.8
Q ss_pred cCCCCCCCCCCCCCcccCchhhhhhhhhccccccccccccccccCChhHhhhhhcccCCcceecC-CCCcccChhHHHHH
Q 011807 124 VCPEPSCVHHHPSRALGDLTGIKKHFCRKHGERKWKCEKCSKVYAVQSDWKAHSKTCGTREYRCD-CGTLFSRKDSFITH 202 (477)
Q Consensus 124 ~C~~C~C~~~~~~k~F~~~~~L~~H~r~Htgekpf~C~~C~K~F~~~s~L~~H~r~~gekpy~C~-Cgk~F~~~~~L~~H 202 (477)
+|..| +..|.....|..|+...++-.. . ..+.+.....+..+.+..-...+.|. |++.|.....|..|
T Consensus 1 ~C~~C-------~~~f~~~~~l~~H~~~~H~~~~---~-~~~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~~l~~H 69 (100)
T PF12756_consen 1 QCLFC-------DESFSSVDDLLQHMKKKHGFDI---P-DQKYLVDPNRLLNYLRKKVKESFRCPYCNKTFRSREALQEH 69 (100)
T ss_dssp -----------------------------------------------------------SSEEBSSSS-EESSHHHHHHH
T ss_pred Ccccc-------cccccccccccccccccccccc---c-cccccccccccccccccccCCCCCCCccCCCCcCHHHHHHH
Confidence 47777 8999999999999976665321 1 12222344445555544223479999 99999999999999
Q ss_pred HHH
Q 011807 203 RAF 205 (477)
Q Consensus 203 ~~~ 205 (477)
++.
T Consensus 70 m~~ 72 (100)
T PF12756_consen 70 MRS 72 (100)
T ss_dssp HHH
T ss_pred HcC
Confidence 975
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=96.02 E-value=0.0028 Score=38.36 Aligned_cols=19 Identities=26% Similarity=0.716 Sum_probs=7.1
Q ss_pred cccccccccCChhHhhhhh
Q 011807 159 KCEKCSKVYAVQSDWKAHS 177 (477)
Q Consensus 159 ~C~~C~K~F~~~s~L~~H~ 177 (477)
+|++|++.|.+...|+.|+
T Consensus 2 ~C~~C~~~~~~~~~l~~H~ 20 (24)
T PF13894_consen 2 QCPICGKSFRSKSELRQHM 20 (24)
T ss_dssp E-SSTS-EESSHHHHHHHH
T ss_pred CCcCCCCcCCcHHHHHHHH
Confidence 3444444444444444443
No 38
>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=95.60 E-value=0.0059 Score=38.56 Aligned_cols=23 Identities=22% Similarity=0.761 Sum_probs=13.2
Q ss_pred cccccccccccCChhHhhhhhcc
Q 011807 157 KWKCEKCSKVYAVQSDWKAHSKT 179 (477)
Q Consensus 157 pf~C~~C~K~F~~~s~L~~H~r~ 179 (477)
+|+|.+|++.|.....|..|++.
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~ 23 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRS 23 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCT
T ss_pred CCCCCccCCccCChhHHHHHhHH
Confidence 35556666666666666665554
No 39
>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=95.27 E-value=0.0088 Score=43.74 Aligned_cols=31 Identities=16% Similarity=0.284 Sum_probs=20.5
Q ss_pred ccccccccccccccCChhHhhhhhcc-cCCcc
Q 011807 154 GERKWKCEKCSKVYAVQSDWKAHSKT-CGTRE 184 (477)
Q Consensus 154 gekpf~C~~C~K~F~~~s~L~~H~r~-~gekp 184 (477)
.+.|-.|++|+..+....+|++|+.+ |+.||
T Consensus 21 S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 21 SEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred cCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 46778888888888888888888887 77765
No 40
>smart00355 ZnF_C2H2 zinc finger.
Probab=95.11 E-value=0.014 Score=35.58 Aligned_cols=24 Identities=33% Similarity=0.681 Sum_probs=22.0
Q ss_pred eecCCCCccccChhHHHHHHhhcC
Q 011807 81 FVCEVCNKGFQRDQNLQLHRRGHN 104 (477)
Q Consensus 81 ~~C~~Cgk~F~~~~~L~~H~r~H~ 104 (477)
|+|..|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 679999999999999999999774
No 41
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=95.07 E-value=0.058 Score=55.60 Aligned_cols=143 Identities=22% Similarity=0.249 Sum_probs=93.1
Q ss_pred cCCCCCCCCCCchhhhhcCcc--ccCCC--CceecC--CCCccccChhHHHHHHhhcCC--Ccccccc--ccc-------
Q 011807 53 KKRSLPGNPDPDAEVIALSPK--TLLAT--NRFVCE--VCNKGFQRDQNLQLHRRGHNL--PWKLKQR--SNK------- 115 (477)
Q Consensus 53 kk~~~~~~~~~~~~~~~~~~~--~~~~~--k~~~C~--~Cgk~F~~~~~L~~H~r~H~~--p~~c~~~--~~~------- 115 (477)
..+..+.........+..+.+ .|..+ +++.|. .|++.|.+...+..|...|.. +.++... ...
T Consensus 290 ~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 369 (467)
T COG5048 290 IKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLLNN 369 (467)
T ss_pred CCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCccccccccCC
Confidence 444555556666677777777 78988 999999 799999999999999999972 2222211 000
Q ss_pred ----------cccccCcccCCCCCCCCCCCCCcccCchhhhhhhhhccccc--cccccccccccCChhHhhhhhcc-cCC
Q 011807 116 ----------DIIKKKAYVCPEPSCVHHHPSRALGDLTGIKKHFCRKHGER--KWKCEKCSKVYAVQSDWKAHSKT-CGT 182 (477)
Q Consensus 116 ----------~~~~~k~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Htgek--pf~C~~C~K~F~~~s~L~~H~r~-~ge 182 (477)
.....+.+.|..-.| .+.+.....+..|...|...+ .+.|..|.+.|.....+..|++. ...
T Consensus 370 ~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 444 (467)
T COG5048 370 EPPQSLQQYKDLKNDKKSETLSNSC-----IRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHTNH 444 (467)
T ss_pred CCccchhhccCccCCccccccccch-----hhhhccccccccccccccccCCcCCCCCcchhhccCcccccccccccccC
Confidence 001223344443323 667777777777777777666 45667788888888888888888 444
Q ss_pred cceecCCCCcccChhHHH
Q 011807 183 REYRCDCGTLFSRKDSFI 200 (477)
Q Consensus 183 kpy~C~Cgk~F~~~~~L~ 200 (477)
.++.|.+-+.|.....+.
T Consensus 445 ~~~~~~~~~~~~~~~~~~ 462 (467)
T COG5048 445 APLLCSILKSFRRDLDLS 462 (467)
T ss_pred Cceeeccccccchhhhhh
Confidence 444444545555444443
No 42
>PRK04860 hypothetical protein; Provisional
Probab=94.69 E-value=0.012 Score=54.06 Aligned_cols=36 Identities=31% Similarity=0.766 Sum_probs=26.4
Q ss_pred cccccccccccCChhHhhhhhcc-cCCcceecC-CCCcccCh
Q 011807 157 KWKCEKCSKVYAVQSDWKAHSKT-CGTREYRCD-CGTLFSRK 196 (477)
Q Consensus 157 pf~C~~C~K~F~~~s~L~~H~r~-~gekpy~C~-Cgk~F~~~ 196 (477)
+|.|. |++ ....+++|.++ .++++|+|. |++.|...
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFK 156 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEe
Confidence 57787 776 55667778777 777788887 88777654
No 43
>PRK04860 hypothetical protein; Provisional
Probab=94.66 E-value=0.012 Score=54.01 Aligned_cols=40 Identities=18% Similarity=0.486 Sum_probs=34.2
Q ss_pred CcccCCCCCCCCCCCCCcccCchhhhhhhhhccccccccccccccccCChh
Q 011807 121 KAYVCPEPSCVHHHPSRALGDLTGIKKHFCRKHGERKWKCEKCSKVYAVQS 171 (477)
Q Consensus 121 k~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Htgekpf~C~~C~K~F~~~s 171 (477)
-+|.|. | ++ ....+.+|.++|+++++|+|..|++.|....
T Consensus 118 ~~Y~C~-C-------~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 118 FPYRCK-C-------QE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFKG 157 (160)
T ss_pred EEEEcC-C-------CC---eeCHHHHHHHHhcCCccEECCCCCceeEEec
Confidence 469997 7 65 6788999999999999999999999887543
No 44
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.31 E-value=0.041 Score=60.67 Aligned_cols=95 Identities=15% Similarity=0.292 Sum_probs=65.9
Q ss_pred CcccCchhhhhhhhhcccccccccccc---------ccccCChhHhhhhhcc--cCCcc----eecC-CCCcccChhHHH
Q 011807 137 RALGDLTGIKKHFCRKHGERKWKCEKC---------SKVYAVQSDWKAHSKT--CGTRE----YRCD-CGTLFSRKDSFI 200 (477)
Q Consensus 137 k~F~~~~~L~~H~r~Htgekpf~C~~C---------~K~F~~~s~L~~H~r~--~gekp----y~C~-Cgk~F~~~~~L~ 200 (477)
-.|.....|+.|++.-+ +.+.|.+| .....++..|..|++. .+++- -.|+ |...|.....|.
T Consensus 122 ~~~~s~~~Lk~H~~~~H--~~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~~s~rGhp~C~~C~~~fld~~el~ 199 (669)
T KOG2231|consen 122 TEFKSVENLKNHMRDQH--KLHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDDESCRGHPLCKFCHERFLDDDELY 199 (669)
T ss_pred cchhHHHHHHHHHHHhh--hhhccccccccceeeeeeeehehHHHHHHHHhcCCCccccccCCccchhhhhhhccHHHHH
Confidence 34557788999995433 23555554 2223357788999887 53433 3589 999999999999
Q ss_pred HHHHH-------h------hhhhcChHHHHHHHHHhccCCCCCcccCC--CCCCC
Q 011807 201 THRAF-------C------DALAEESARLSANQLATTINTNGHPLHIA--SQNHS 240 (477)
Q Consensus 201 ~H~~~-------C------~k~f~~~~~L~~H~~~h~~~~~~k~~~C~--~C~~~ 240 (477)
+|++. | ..-|.....|..|.|.+ -|.|+ .|.-.
T Consensus 200 rH~~~~h~~chfC~~~~~~neyy~~~~dLe~HfR~~-------HflCE~~~C~~~ 247 (669)
T KOG2231|consen 200 RHLRFDHEFCHFCDYKTGQNEYYNDYDDLEEHFRKG-------HFLCEEEFCRTK 247 (669)
T ss_pred HhhccceeheeecCcccccchhcccchHHHHHhhhc-------Cccccccccccc
Confidence 99994 4 34578888999998765 46676 55444
No 45
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=94.24 E-value=0.029 Score=34.63 Aligned_cols=23 Identities=39% Similarity=0.967 Sum_probs=21.3
Q ss_pred eecCCCCccccChhHHHHHHhhc
Q 011807 81 FVCEVCNKGFQRDQNLQLHRRGH 103 (477)
Q Consensus 81 ~~C~~Cgk~F~~~~~L~~H~r~H 103 (477)
|.|.+|++.|.+...|..|++.+
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
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.11 E-value=0.066 Score=54.03 Aligned_cols=134 Identities=15% Similarity=0.152 Sum_probs=87.1
Q ss_pred ceecCC--CCccccChhHHHHHHhhcCCCccccccccccccccCcccCCCCCCCCCCCCCcccCchhhhhhhhhcccccc
Q 011807 80 RFVCEV--CNKGFQRDQNLQLHRRGHNLPWKLKQRSNKDIIKKKAYVCPEPSCVHHHPSRALGDLTGIKKHFCRKHGERK 157 (477)
Q Consensus 80 ~~~C~~--Cgk~F~~~~~L~~H~r~H~~p~~c~~~~~~~~~~~k~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Htgekp 157 (477)
.|.|+. |......-..|..|.+..+..+-|.+|. ..++.|.|+. ..-++..|..|...-..+.-
T Consensus 151 ~F~CP~skc~~~C~~~k~lk~H~K~~H~~~~C~~C~----~nKk~F~~E~----------~lF~~~~Lr~H~~~G~~e~G 216 (493)
T COG5236 151 SFKCPKSKCHRRCGSLKELKKHYKAQHGFVLCSECI----GNKKDFWNEI----------RLFRSSTLRDHKNGGLEEEG 216 (493)
T ss_pred HhcCCchhhhhhhhhHHHHHHHHHhhcCcEEhHhhh----cCcccCccce----------eeeecccccccccCCccccC
Confidence 477875 6655555677888888766444444442 1334555543 23345667777655433323
Q ss_pred ----ccccccccccCChhHhhhhhcccCCcceecC-C----CCcccChhHHHHHHHH---------hh----hhhcChHH
Q 011807 158 ----WKCEKCSKVYAVQSDWKAHSKTCGTREYRCD-C----GTLFSRKDSFITHRAF---------CD----ALAEESAR 215 (477)
Q Consensus 158 ----f~C~~C~K~F~~~s~L~~H~r~~gekpy~C~-C----gk~F~~~~~L~~H~~~---------C~----k~f~~~~~ 215 (477)
-.|..|.+.|.....|.+|+|.-.|+-|.|+ = .+-|....+|..|-+. |- ..|.....
T Consensus 217 FKGHP~C~FC~~~FYdDDEL~~HcR~~HE~ChICD~v~p~~~QYFK~Y~~Le~HF~~~hy~ct~qtc~~~k~~vf~~~~e 296 (493)
T COG5236 217 FKGHPLCIFCKIYFYDDDELRRHCRLRHEACHICDMVGPIRYQYFKSYEDLEAHFRNAHYCCTFQTCRVGKCYVFPYHTE 296 (493)
T ss_pred cCCCchhhhccceecChHHHHHHHHhhhhhhhhhhccCccchhhhhCHHHHHHHhhcCceEEEEEEEecCcEEEeccHHH
Confidence 3699999999999999999998446667775 2 2348888899999883 32 34788888
Q ss_pred HHHHH-HHhccCC
Q 011807 216 LSANQ-LATTINT 227 (477)
Q Consensus 216 L~~H~-~~h~~~~ 227 (477)
|..|+ +.|....
T Consensus 297 l~~h~~~~h~~~~ 309 (493)
T COG5236 297 LLEHLTRFHKVNA 309 (493)
T ss_pred HHHHHHHHhhccc
Confidence 89995 4454443
No 47
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=93.46 E-value=0.058 Score=62.93 Aligned_cols=67 Identities=18% Similarity=0.204 Sum_probs=41.0
Q ss_pred CCCceecCCCCccccChhHHHHHHhhcC-CC--ccccccc--------cccccccCcccCCCCCCCCCCCCCcccCchhh
Q 011807 77 ATNRFVCEVCNKGFQRDQNLQLHRRGHN-LP--WKLKQRS--------NKDIIKKKAYVCPEPSCVHHHPSRALGDLTGI 145 (477)
Q Consensus 77 ~~k~~~C~~Cgk~F~~~~~L~~H~r~H~-~p--~~c~~~~--------~~~~~~~k~~~C~~C~C~~~~~~k~F~~~~~L 145 (477)
-.+.|+|+.|+..|+....|..|+|.-+ .. -.|+... .....+.++|.|..| ...+..+.+|
T Consensus 462 ~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C-------~~stttng~L 534 (1406)
T KOG1146|consen 462 FFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRAC-------NYSTTTNGNL 534 (1406)
T ss_pred ccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceee-------eeeeecchHH
Confidence 3478999999999999999999999743 11 1111100 001124456666666 5666666666
Q ss_pred hhhhh
Q 011807 146 KKHFC 150 (477)
Q Consensus 146 ~~H~r 150 (477)
.+|+.
T Consensus 535 sihlq 539 (1406)
T KOG1146|consen 535 SIHLQ 539 (1406)
T ss_pred HHHHH
Confidence 66654
No 48
>smart00355 ZnF_C2H2 zinc finger.
Probab=93.32 E-value=0.044 Score=33.29 Aligned_cols=22 Identities=36% Similarity=0.862 Sum_probs=12.4
Q ss_pred ccccccccccCChhHhhhhhcc
Q 011807 158 WKCEKCSKVYAVQSDWKAHSKT 179 (477)
Q Consensus 158 f~C~~C~K~F~~~s~L~~H~r~ 179 (477)
|+|..|++.|.....|..|++.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~ 22 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRT 22 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHH
Confidence 3455566666555555555543
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=93.18 E-value=0.045 Score=40.12 Aligned_cols=33 Identities=12% Similarity=0.311 Sum_probs=24.6
Q ss_pred cccCcccCCCCCCCCCCCCCcccCchhhhhhhhhcccccc
Q 011807 118 IKKKAYVCPEPSCVHHHPSRALGDLTGIKKHFCRKHGERK 157 (477)
Q Consensus 118 ~~~k~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Htgekp 157 (477)
..+.|..|++| +..+....+|++|+.++++.||
T Consensus 20 ~S~~PatCP~C-------~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 20 QSEQPATCPIC-------GAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TTS--EE-TTT---------EESSHHHHHHHHHHHTTTS-
T ss_pred ccCCCCCCCcc-------hhhccchhhHHHHHHHHhcccC
Confidence 36789999999 9999999999999999988776
No 50
>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=93.14 E-value=0.06 Score=34.09 Aligned_cols=22 Identities=27% Similarity=0.753 Sum_probs=18.3
Q ss_pred ccccccccccCChhHhhhhhcc
Q 011807 158 WKCEKCSKVYAVQSDWKAHSKT 179 (477)
Q Consensus 158 f~C~~C~K~F~~~s~L~~H~r~ 179 (477)
|.|..|++.|.+...|..|++.
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCcccCCCCcCCHHHHHHHHcc
Confidence 6788888888888888888875
No 51
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=93.05 E-value=0.069 Score=33.42 Aligned_cols=21 Identities=33% Similarity=0.852 Sum_probs=15.5
Q ss_pred eecC-CCCcccChhHHHHHHHHh
Q 011807 185 YRCD-CGTLFSRKDSFITHRAFC 206 (477)
Q Consensus 185 y~C~-Cgk~F~~~~~L~~H~~~C 206 (477)
..|. |++.| ..+.|.+|+++|
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~C 24 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKIC 24 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHhc
Confidence 3577 88888 666777787776
No 52
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=92.53 E-value=0.057 Score=33.28 Aligned_cols=21 Identities=19% Similarity=0.713 Sum_probs=13.0
Q ss_pred ccccccccccCChhHhhhhhc
Q 011807 158 WKCEKCSKVYAVQSDWKAHSK 178 (477)
Q Consensus 158 f~C~~C~K~F~~~s~L~~H~r 178 (477)
|.|.+|++.|.....|+.|++
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~ 21 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLR 21 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHT
T ss_pred CCCCCCCCCcCCHHHHHHHHC
Confidence 456666666666666666654
No 53
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=92.34 E-value=0.11 Score=52.39 Aligned_cols=93 Identities=27% Similarity=0.544 Sum_probs=67.7
Q ss_pred ccCCCCCCCCCCCCCcccCchhhhhhhhhccccccccccccc---cccC------ChhHhhhhhcc-cCCcce----ecC
Q 011807 123 YVCPEPSCVHHHPSRALGDLTGIKKHFCRKHGERKWKCEKCS---KVYA------VQSDWKAHSKT-CGTREY----RCD 188 (477)
Q Consensus 123 ~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Htgekpf~C~~C~---K~F~------~~s~L~~H~r~-~gekpy----~C~ 188 (477)
|.|+.-.| ..++.....|+.|.+..++. +.|.+|- |.|. ++..|+.|... -.+.-| .|.
T Consensus 152 F~CP~skc-----~~~C~~~k~lk~H~K~~H~~--~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFKGHP~C~ 224 (493)
T COG5236 152 FKCPKSKC-----HRRCGSLKELKKHYKAQHGF--VLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCI 224 (493)
T ss_pred hcCCchhh-----hhhhhhHHHHHHHHHhhcCc--EEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchhh
Confidence 77876544 67777788999999876653 7788873 3444 45678888876 333233 599
Q ss_pred -CCCcccChhHHHHHHH-------Hhhhh-------hcChHHHHHHHHH
Q 011807 189 -CGTLFSRKDSFITHRA-------FCDAL-------AEESARLSANQLA 222 (477)
Q Consensus 189 -Cgk~F~~~~~L~~H~~-------~C~k~-------f~~~~~L~~H~~~ 222 (477)
|.+.|-.-+.|.+|++ +|++. |+.-..|.+|.+.
T Consensus 225 FC~~~FYdDDEL~~HcR~~HE~ChICD~v~p~~~QYFK~Y~~Le~HF~~ 273 (493)
T COG5236 225 FCKIYFYDDDELRRHCRLRHEACHICDMVGPIRYQYFKSYEDLEAHFRN 273 (493)
T ss_pred hccceecChHHHHHHHHhhhhhhhhhhccCccchhhhhCHHHHHHHhhc
Confidence 9999999999999998 47765 6666778888643
No 54
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=91.84 E-value=0.062 Score=34.01 Aligned_cols=23 Identities=30% Similarity=0.813 Sum_probs=20.9
Q ss_pred eecCCCCccccChhHHHHHHhhc
Q 011807 81 FVCEVCNKGFQRDQNLQLHRRGH 103 (477)
Q Consensus 81 ~~C~~Cgk~F~~~~~L~~H~r~H 103 (477)
|.|..|++.|.+...|..|++..
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~sk 24 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKSK 24 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTSH
T ss_pred CCcccCCCCcCCHHHHHHHHccC
Confidence 78999999999999999998753
No 55
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=89.71 E-value=0.11 Score=49.03 Aligned_cols=79 Identities=22% Similarity=0.503 Sum_probs=62.6
Q ss_pred ccCcccCCCCCCCCCCCCCcccCchhhhhhhhhccccccccccccccccCChhHhhhhhcc-c----------CCcceec
Q 011807 119 KKKAYVCPEPSCVHHHPSRALGDLTGIKKHFCRKHGERKWKCEKCSKVYAVQSDWKAHSKT-C----------GTREYRC 187 (477)
Q Consensus 119 ~~k~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Htgekpf~C~~C~K~F~~~s~L~~H~r~-~----------gekpy~C 187 (477)
....|.|++-|| -+.|........|...-++ -.|.+|.+.|.+..-|..|+-- | |..-|.|
T Consensus 76 ~~~~~~cqvagc-----~~~~d~lD~~E~hY~~~h~---~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~C 147 (253)
T KOG4173|consen 76 RVPAFACQVAGC-----CQVFDALDDYEHHYHTLHG---NSCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQC 147 (253)
T ss_pred ccccccccccch-----HHHHhhhhhHHHhhhhccc---chhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHH
Confidence 446788999877 7888888888888766554 3799999999999999999865 4 4456889
Q ss_pred --C-CCCcccChhHHHHHHHH
Q 011807 188 --D-CGTLFSRKDSFITHRAF 205 (477)
Q Consensus 188 --~-Cgk~F~~~~~L~~H~~~ 205 (477)
+ |+..|.+...-+.|+-.
T Consensus 148 lvEgCt~KFkT~r~RkdH~I~ 168 (253)
T KOG4173|consen 148 LVEGCTEKFKTSRDRKDHMIR 168 (253)
T ss_pred HHHhhhhhhhhhhhhhhHHHH
Confidence 4 99999888888877754
No 56
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=88.76 E-value=0.52 Score=47.78 Aligned_cols=22 Identities=23% Similarity=0.614 Sum_probs=15.9
Q ss_pred ccccccccccCChhHhhhhhcc
Q 011807 158 WKCEKCSKVYAVQSDWKAHSKT 179 (477)
Q Consensus 158 f~C~~C~K~F~~~s~L~~H~r~ 179 (477)
+.|-.|.|.|..+..|+.|||.
T Consensus 196 ~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 196 LRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred heeeeeccccCCcHHHHHHHHh
Confidence 6677777777777777777765
No 57
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=88.51 E-value=0.19 Score=30.73 Aligned_cols=8 Identities=38% Similarity=0.488 Sum_probs=3.0
Q ss_pred hhHhhhhh
Q 011807 170 QSDWKAHS 177 (477)
Q Consensus 170 ~s~L~~H~ 177 (477)
...|++|+
T Consensus 12 ~~~l~~H~ 19 (24)
T PF13909_consen 12 KSNLKRHL 19 (24)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHH
Confidence 33333333
No 58
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=88.20 E-value=0.2 Score=58.70 Aligned_cols=78 Identities=17% Similarity=0.221 Sum_probs=51.7
Q ss_pred ccCcccCCCCCCCCCCCCCcccCchhhhhhhhhccccccccccccccccCChhHhhhhhcc-cCCcceecC-CCCcccCh
Q 011807 119 KKKAYVCPEPSCVHHHPSRALGDLTGIKKHFCRKHGERKWKCEKCSKVYAVQSDWKAHSKT-CGTREYRCD-CGTLFSRK 196 (477)
Q Consensus 119 ~~k~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Htgekpf~C~~C~K~F~~~s~L~~H~r~-~gekpy~C~-Cgk~F~~~ 196 (477)
..|.|+|+.| +..|+....|..|+|..+-+-.- .+|. .+.....+.+=... .+.++|.|. |...|..+
T Consensus 462 ~~kt~~cpkc-------~~~yk~a~~L~vhmRskhp~~~~--~~c~-~gq~~~~~arg~~~~~~~~p~~C~~C~~stttn 531 (1406)
T KOG1146|consen 462 FFKTLKCPKC-------NWHYKLAQTLGVHMRSKHPESQS--AYCK-AGQNHPRLARGEVYRCPGKPYPCRACNYSTTTN 531 (1406)
T ss_pred ccccccCCcc-------chhhhhHHHhhhcccccccccch--hHhH-hccccccccccccccCCCCcccceeeeeeeecc
Confidence 4588899998 88899999999999874432111 2331 12211111111111 456899999 99999999
Q ss_pred hHHHHHHHHh
Q 011807 197 DSFITHRAFC 206 (477)
Q Consensus 197 ~~L~~H~~~C 206 (477)
.+|.+|+..|
T Consensus 532 g~LsihlqS~ 541 (1406)
T KOG1146|consen 532 GNLSIHLQSD 541 (1406)
T ss_pred hHHHHHHHHH
Confidence 9999999864
No 59
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=87.47 E-value=0.35 Score=29.49 Aligned_cols=23 Identities=26% Similarity=0.603 Sum_probs=18.4
Q ss_pred eecCCCCccccChhHHHHHHhhcC
Q 011807 81 FVCEVCNKGFQRDQNLQLHRRGHN 104 (477)
Q Consensus 81 ~~C~~Cgk~F~~~~~L~~H~r~H~ 104 (477)
|+|..|..... ...|.+|++.|+
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 78999998887 889999998864
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=83.99 E-value=0.6 Score=30.98 Aligned_cols=23 Identities=22% Similarity=0.463 Sum_probs=15.6
Q ss_pred cccccccccccCChhHhhhhhcc
Q 011807 157 KWKCEKCSKVYAVQSDWKAHSKT 179 (477)
Q Consensus 157 pf~C~~C~K~F~~~s~L~~H~r~ 179 (477)
+|.|++|++.|.....+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 36677777777777777777654
No 61
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=83.82 E-value=0.87 Score=30.17 Aligned_cols=24 Identities=29% Similarity=0.782 Sum_probs=21.3
Q ss_pred ceecCCCCccccChhHHHHHHhhc
Q 011807 80 RFVCEVCNKGFQRDQNLQLHRRGH 103 (477)
Q Consensus 80 ~~~C~~Cgk~F~~~~~L~~H~r~H 103 (477)
+|.|++|++.|.+...+..|++..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~gk 26 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKGK 26 (35)
T ss_pred CeEccccCCccCCHHHHHHHHChH
Confidence 588999999999999999998753
No 62
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=83.04 E-value=0.34 Score=46.67 Aligned_cols=43 Identities=21% Similarity=0.314 Sum_probs=32.9
Q ss_pred CCCCCCCCCCCCCcccCchhhhhhhhhccccccccccccccccCChhHhhhhhc
Q 011807 125 CPEPSCVHHHPSRALGDLTGIKKHFCRKHGERKWKCEKCSKVYAVQSDWKAHSK 178 (477)
Q Consensus 125 C~~C~C~~~~~~k~F~~~~~L~~H~r~Htgekpf~C~~C~K~F~~~s~L~~H~r 178 (477)
|.+| ++.|.+..-|..|++. |.|+|.+|.|..-+--.|..|-.
T Consensus 13 cwyc-------nrefddekiliqhqka----khfkchichkkl~sgpglsihcm 55 (341)
T KOG2893|consen 13 CWYC-------NREFDDEKILIQHQKA----KHFKCHICHKKLFSGPGLSIHCM 55 (341)
T ss_pred eeec-------ccccchhhhhhhhhhh----ccceeeeehhhhccCCCceeehh
Confidence 7787 8888888888887764 55899999887777667766643
No 63
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=82.56 E-value=1 Score=28.12 Aligned_cols=21 Identities=24% Similarity=0.665 Sum_probs=17.6
Q ss_pred eecCCCCccccChhHHHHHHhh
Q 011807 81 FVCEVCNKGFQRDQNLQLHRRG 102 (477)
Q Consensus 81 ~~C~~Cgk~F~~~~~L~~H~r~ 102 (477)
..|+.||+.| ....|..|+.+
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 5799999999 56789999864
No 64
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=80.50 E-value=0.94 Score=45.95 Aligned_cols=94 Identities=14% Similarity=0.219 Sum_probs=58.8
Q ss_pred cccCCCCCCCCCCCCCcccCchhhhhhhhh--cccccc--------ccc--cccccccCCh-hHhh-----hhhcc----
Q 011807 122 AYVCPEPSCVHHHPSRALGDLTGIKKHFCR--KHGERK--------WKC--EKCSKVYAVQ-SDWK-----AHSKT---- 179 (477)
Q Consensus 122 ~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~--Htgekp--------f~C--~~C~K~F~~~-s~L~-----~H~r~---- 179 (477)
.+.|-+| .+.|..+..|+.|||. |..-.| |.= ..-+|+.... +.+. .+..+
T Consensus 195 r~~CLyC-------ekifrdkntLkeHMrkK~HrrinPknreYDkfyiINY~ev~ks~t~~~~e~dret~~d~~E~D~~w 267 (423)
T KOG2482|consen 195 RLRCLYC-------EKIFRDKNTLKEHMRKKRHRRINPKNREYDKFYIINYLEVGKSWTIVHSEDDRETNEDINETDDTW 267 (423)
T ss_pred hheeeee-------ccccCCcHHHHHHHHhccCcccCCCccccceEEEEeHhhcCCccchhhhhhhhhhhccccccccch
Confidence 4789998 9999999999999985 332221 111 1123333211 1110 01100
Q ss_pred -----cCCcc--eecC-CCCcccChhHHHHHHHH--------------------------------------hhhhhcCh
Q 011807 180 -----CGTRE--YRCD-CGTLFSRKDSFITHRAF--------------------------------------CDALAEES 213 (477)
Q Consensus 180 -----~gekp--y~C~-Cgk~F~~~~~L~~H~~~--------------------------------------C~k~f~~~ 213 (477)
.+..+ .+|- |....-+...|..|+++ |+..|...
T Consensus 268 sDw~ed~a~a~~v~CLfC~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e 347 (423)
T KOG2482|consen 268 SDWNEDDAEALSVVCLFCTNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKE 347 (423)
T ss_pred hhhhcCCCCccceEEEeeccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCc
Confidence 01222 5788 88888888888888872 88899999
Q ss_pred HHHHHHHHH
Q 011807 214 ARLSANQLA 222 (477)
Q Consensus 214 ~~L~~H~~~ 222 (477)
..|..||..
T Consensus 348 ~~l~~hm~e 356 (423)
T KOG2482|consen 348 PGLLIHMVE 356 (423)
T ss_pred chhhhhccc
Confidence 999999854
No 65
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=77.29 E-value=1.2 Score=43.14 Aligned_cols=41 Identities=27% Similarity=0.517 Sum_probs=32.5
Q ss_pred cCCCCccccChhHHHHHHhhcCCCccccccccccccccCcccCCCCCCCCCCCCCcccCchhhhhh
Q 011807 83 CEVCNKGFQRDQNLQLHRRGHNLPWKLKQRSNKDIIKKKAYVCPEPSCVHHHPSRALGDLTGIKKH 148 (477)
Q Consensus 83 C~~Cgk~F~~~~~L~~H~r~H~~p~~c~~~~~~~~~~~k~~~C~~C~C~~~~~~k~F~~~~~L~~H 148 (477)
|=+|++.|..+.-|.+|++ .|.|+|.+| .|.+-+--.|..|
T Consensus 13 cwycnrefddekiliqhqk------------------akhfkchic-------hkkl~sgpglsih 53 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQK------------------AKHFKCHIC-------HKKLFSGPGLSIH 53 (341)
T ss_pred eeecccccchhhhhhhhhh------------------hccceeeee-------hhhhccCCCceee
Confidence 8899999999999999984 456899999 6665555566665
No 66
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=75.80 E-value=1.2 Score=43.04 Aligned_cols=41 Identities=20% Similarity=0.482 Sum_probs=23.0
Q ss_pred ccccccccccccCChhHhhhhhcc-c----------CCcc-----eecC-CCCcccCh
Q 011807 156 RKWKCEKCSKVYAVQSDWKAHSKT-C----------GTRE-----YRCD-CGTLFSRK 196 (477)
Q Consensus 156 kpf~C~~C~K~F~~~s~L~~H~r~-~----------gekp-----y~C~-Cgk~F~~~ 196 (477)
|.+.|++|++.|.+..-+....|. . +..| .+|+ ||..|...
T Consensus 4 k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 456667777666665444433332 1 1122 5688 98887654
No 67
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=75.13 E-value=1.6 Score=42.67 Aligned_cols=45 Identities=24% Similarity=0.651 Sum_probs=30.9
Q ss_pred ccccccccccCChhHhhhhhcccCCcceecC-CCCcccChhHHHHHHH
Q 011807 158 WKCEKCSKVYAVQSDWKAHSKTCGTREYRCD-CGTLFSRKDSFITHRA 204 (477)
Q Consensus 158 f~C~~C~K~F~~~s~L~~H~r~~gekpy~C~-Cgk~F~~~~~L~~H~~ 204 (477)
|.|.+||.... +..+.+|+..+...-|.|- |++.|.+ .+++.|..
T Consensus 4 FtCnvCgEsvK-Kp~vekH~srCrn~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 4 FTCNVCGESVK-KPQVEKHMSRCRNAYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred Eehhhhhhhcc-ccchHHHHHhccCCeeEEeeccccccc-chhhhhhh
Confidence 67777776654 4466677777333678887 8888877 66777765
No 68
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=73.76 E-value=1 Score=42.55 Aligned_cols=79 Identities=20% Similarity=0.384 Sum_probs=62.2
Q ss_pred CCceecCC--CCccccChhHHHHHHhhcCCCccccccccccccccCcccCCCCCCCCCCCCCcccCchhhhhhhhhc---
Q 011807 78 TNRFVCEV--CNKGFQRDQNLQLHRRGHNLPWKLKQRSNKDIIKKKAYVCPEPSCVHHHPSRALGDLTGIKKHFCRK--- 152 (477)
Q Consensus 78 ~k~~~C~~--Cgk~F~~~~~L~~H~r~H~~p~~c~~~~~~~~~~~k~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~H--- 152 (477)
...|.|.+ |-..|.....+..|..+-+ .-.|.+| .+.|.+..-|..|+..-
T Consensus 77 ~~~~~cqvagc~~~~d~lD~~E~hY~~~h-----------------~~sCs~C-------~r~~Pt~hLLd~HI~E~HDs 132 (253)
T KOG4173|consen 77 VPAFACQVAGCCQVFDALDDYEHHYHTLH-----------------GNSCSFC-------KRAFPTGHLLDAHILEWHDS 132 (253)
T ss_pred cccccccccchHHHHhhhhhHHHhhhhcc-----------------cchhHHH-------HHhCCchhhhhHHHHHHHHH
Confidence 45788987 7788888887877775443 3478888 99999999999998643
Q ss_pred -------ccccccccc--ccccccCChhHhhhhhcc-c
Q 011807 153 -------HGERKWKCE--KCSKVYAVQSDWKAHSKT-C 180 (477)
Q Consensus 153 -------tgekpf~C~--~C~K~F~~~s~L~~H~r~-~ 180 (477)
.|..-|.|- .|+..|.+....+.|+-. |
T Consensus 133 ~Fqa~veRG~dMy~ClvEgCt~KFkT~r~RkdH~I~~H 170 (253)
T KOG4173|consen 133 LFQALVERGQDMYQCLVEGCTEKFKTSRDRKDHMIRMH 170 (253)
T ss_pred HHHHHHHcCccHHHHHHHhhhhhhhhhhhhhhHHHHhc
Confidence 344569994 599999999999999876 5
No 69
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=71.06 E-value=1.4 Score=33.04 Aligned_cols=25 Identities=36% Similarity=0.832 Sum_probs=14.4
Q ss_pred cCCcceecC-CCCcccChhHHHHHHH
Q 011807 180 CGTREYRCD-CGTLFSRKDSFITHRA 204 (477)
Q Consensus 180 ~gekpy~C~-Cgk~F~~~~~L~~H~~ 204 (477)
-||.-++|+ |++.|.+..++.+|..
T Consensus 13 DGE~~lrCPRC~~~FR~~K~Y~RHVN 38 (65)
T COG4049 13 DGEEFLRCPRCGMVFRRRKDYIRHVN 38 (65)
T ss_pred CCceeeeCCchhHHHHHhHHHHHHhh
Confidence 355555565 6666666555555554
No 70
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=69.28 E-value=2.2 Score=31.96 Aligned_cols=27 Identities=26% Similarity=0.678 Sum_probs=22.6
Q ss_pred hccccccccccccccccCChhHhhhhh
Q 011807 151 RKHGERKWKCEKCSKVYAVQSDWKAHS 177 (477)
Q Consensus 151 ~Htgekpf~C~~C~K~F~~~s~L~~H~ 177 (477)
.-.||.-++|+-|++.|....+..+|.
T Consensus 11 ~RDGE~~lrCPRC~~~FR~~K~Y~RHV 37 (65)
T COG4049 11 DRDGEEFLRCPRCGMVFRRRKDYIRHV 37 (65)
T ss_pred ccCCceeeeCCchhHHHHHhHHHHHHh
Confidence 445788899999999999988887774
No 71
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=68.34 E-value=32 Score=39.06 Aligned_cols=11 Identities=9% Similarity=-0.100 Sum_probs=7.0
Q ss_pred cC-CCCcccChh
Q 011807 187 CD-CGTLFSRKD 197 (477)
Q Consensus 187 C~-Cgk~F~~~~ 197 (477)
|. |+-.|.++.
T Consensus 439 r~~~DPdf~yr~ 450 (1102)
T KOG1924|consen 439 RTGMDPDFKYRF 450 (1102)
T ss_pred cCCCCCCcchhh
Confidence 55 776666655
No 72
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=68.07 E-value=2 Score=39.24 Aligned_cols=15 Identities=20% Similarity=0.534 Sum_probs=9.7
Q ss_pred ccccccccccCChhH
Q 011807 158 WKCEKCSKVYAVQSD 172 (477)
Q Consensus 158 f~C~~C~K~F~~~s~ 172 (477)
++|+.||++|.+...
T Consensus 29 ~~c~~c~~~f~~~e~ 43 (154)
T PRK00464 29 RECLACGKRFTTFER 43 (154)
T ss_pred eeccccCCcceEeEe
Confidence 667777777765443
No 73
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=64.91 E-value=10 Score=39.40 Aligned_cols=49 Identities=20% Similarity=0.249 Sum_probs=39.8
Q ss_pred cccccccccccCChhHhhhhhcc-cCC-----------------------cceecC-CC---CcccChhHHHHHHHH
Q 011807 157 KWKCEKCSKVYAVQSDWKAHSKT-CGT-----------------------REYRCD-CG---TLFSRKDSFITHRAF 205 (477)
Q Consensus 157 pf~C~~C~K~F~~~s~L~~H~r~-~ge-----------------------kpy~C~-Cg---k~F~~~~~L~~H~~~ 205 (477)
|-.|..|++.|.....-..||.. ||- .-|.|- |. +.|......+.||..
T Consensus 166 Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 166 PTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred CcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 57799999999999999999988 751 237787 87 888888888888875
No 74
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=63.90 E-value=16 Score=41.34 Aligned_cols=6 Identities=17% Similarity=0.573 Sum_probs=2.5
Q ss_pred CCceec
Q 011807 78 TNRFVC 83 (477)
Q Consensus 78 ~k~~~C 83 (477)
.+.+.|
T Consensus 156 ~~l~~C 161 (1102)
T KOG1924|consen 156 KKLLEC 161 (1102)
T ss_pred ccHHHH
Confidence 334444
No 75
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=63.45 E-value=4.1 Score=35.01 Aligned_cols=15 Identities=20% Similarity=0.561 Sum_probs=9.2
Q ss_pred ccccccccccccCCh
Q 011807 156 RKWKCEKCSKVYAVQ 170 (477)
Q Consensus 156 kpf~C~~C~K~F~~~ 170 (477)
.|..|++||..|.-.
T Consensus 25 ~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 25 DPIVCPKCGTEFPPE 39 (108)
T ss_pred CCccCCCCCCccCcc
Confidence 466666666666544
No 76
>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=62.53 E-value=4.8 Score=26.74 Aligned_cols=10 Identities=30% Similarity=1.069 Sum_probs=6.6
Q ss_pred cccccccccc
Q 011807 156 RKWKCEKCSK 165 (477)
Q Consensus 156 kpf~C~~C~K 165 (477)
.++.|++|+.
T Consensus 16 ~~~~CP~Cg~ 25 (33)
T cd00350 16 APWVCPVCGA 25 (33)
T ss_pred CCCcCcCCCC
Confidence 5677777764
No 77
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=60.55 E-value=2.4 Score=40.91 Aligned_cols=23 Identities=26% Similarity=0.637 Sum_probs=10.1
Q ss_pred cccccccccccCChhHhhhhhcc
Q 011807 157 KWKCEKCSKVYAVQSDWKAHSKT 179 (477)
Q Consensus 157 pf~C~~C~K~F~~~s~L~~H~r~ 179 (477)
.|.|..|+|.|.-...+++|+..
T Consensus 77 K~~C~lc~KlFkg~eFV~KHI~n 99 (214)
T PF04959_consen 77 KWRCPLCGKLFKGPEFVRKHIFN 99 (214)
T ss_dssp EEEE-SSS-EESSHHHHHHHHHH
T ss_pred EECCCCCCcccCChHHHHHHHhh
Confidence 34454455555444444444444
No 78
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=56.44 E-value=11 Score=38.71 Aligned_cols=27 Identities=22% Similarity=0.698 Sum_probs=20.7
Q ss_pred CCCCceecCC--CCccccChhHHHHHHhh
Q 011807 76 LATNRFVCEV--CNKGFQRDQNLQLHRRG 102 (477)
Q Consensus 76 ~~~k~~~C~~--Cgk~F~~~~~L~~H~r~ 102 (477)
...++|+|.+ |.+.++....|..|...
T Consensus 345 ~~~~~~~~~vp~~~~~~~n~ng~~~~~~~ 373 (442)
T KOG4124|consen 345 VVDKPYKCPVPNCDKAYKNQNGLKYHKLH 373 (442)
T ss_pred EecCCCCCCCCcchhhcccCcceeecccc
Confidence 3467899965 99999888888777553
No 79
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=56.08 E-value=4.4 Score=41.37 Aligned_cols=28 Identities=7% Similarity=-0.113 Sum_probs=21.6
Q ss_pred ccccCCCCceecCCCCccccChhHHHHHH
Q 011807 72 PKTLLATNRFVCEVCNKGFQRDQNLQLHR 100 (477)
Q Consensus 72 ~~~~~~~k~~~C~~Cgk~F~~~~~L~~H~ 100 (477)
+...+..++|+|. |++.+.++..|+.|-
T Consensus 205 ~T~~t~~~p~k~~-~~~~~~T~~~l~~HS 232 (442)
T KOG4124|consen 205 STAETTGTPKKMP-ESLVMDTSSPLSDHS 232 (442)
T ss_pred cccccccCCccCc-ccccccccchhhhcc
Confidence 3344556789995 899999999888884
No 80
>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=54.97 E-value=11 Score=26.50 Aligned_cols=26 Identities=23% Similarity=0.470 Sum_probs=17.3
Q ss_pred CCCceecCCCCccccCh----hHHHHHHhh
Q 011807 77 ATNRFVCEVCNKGFQRD----QNLQLHRRG 102 (477)
Q Consensus 77 ~~k~~~C~~Cgk~F~~~----~~L~~H~r~ 102 (477)
+....+|..|++.+... .+|.+|++.
T Consensus 13 ~~~~a~C~~C~~~~~~~~~~ts~l~~HL~~ 42 (45)
T PF02892_consen 13 DKKKAKCKYCGKVIKYSSGGTSNLKRHLKK 42 (45)
T ss_dssp CSS-EEETTTTEE-----SSTHHHHHHHHH
T ss_pred CcCeEEeCCCCeEEeeCCCcHHHHHHhhhh
Confidence 45678999999999875 789999843
No 81
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=54.14 E-value=9 Score=26.06 Aligned_cols=31 Identities=29% Similarity=0.795 Sum_probs=14.5
Q ss_pred cccccccccCChhHhhhhhcccCCcceecC-CCCcc
Q 011807 159 KCEKCSKVYAVQSDWKAHSKTCGTREYRCD-CGTLF 193 (477)
Q Consensus 159 ~C~~C~K~F~~~s~L~~H~r~~gekpy~C~-Cgk~F 193 (477)
.|+.|+..|.-...... -..+..+|. |+..|
T Consensus 4 ~Cp~C~~~y~i~d~~ip----~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEKIP----PKGRKVRCSKCGHVF 35 (36)
T ss_pred ECCCCCCEEeCCHHHCC----CCCcEEECCCCCCEe
Confidence 45555555554433110 223345565 65554
No 82
>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=53.05 E-value=11 Score=33.58 Aligned_cols=25 Identities=32% Similarity=0.696 Sum_probs=17.0
Q ss_pred CCCceecCCCCccccChhHHHHHHhhcC
Q 011807 77 ATNRFVCEVCNKGFQRDQNLQLHRRGHN 104 (477)
Q Consensus 77 ~~k~~~C~~Cgk~F~~~~~L~~H~r~H~ 104 (477)
.+.-..|-+|||.|+. |.+|++.|+
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 3456789999999986 699999996
No 83
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=51.33 E-value=6.4 Score=36.00 Aligned_cols=17 Identities=29% Similarity=0.682 Sum_probs=12.9
Q ss_pred cceecC-CCCcccChhHH
Q 011807 183 REYRCD-CGTLFSRKDSF 199 (477)
Q Consensus 183 kpy~C~-Cgk~F~~~~~L 199 (477)
+.|.|+ ||++|.+...+
T Consensus 27 ~~~~c~~c~~~f~~~e~~ 44 (154)
T PRK00464 27 RRRECLACGKRFTTFERV 44 (154)
T ss_pred eeeeccccCCcceEeEec
Confidence 448999 99999876543
No 84
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=50.93 E-value=6.5 Score=37.87 Aligned_cols=44 Identities=16% Similarity=0.336 Sum_probs=30.0
Q ss_pred cCcccCCCCCCCCCCCCCcccCchhhhhhhhh---c-------ccccc-----ccccccccccCCh
Q 011807 120 KKAYVCPEPSCVHHHPSRALGDLTGIKKHFCR---K-------HGERK-----WKCEKCSKVYAVQ 170 (477)
Q Consensus 120 ~k~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~---H-------tgekp-----f~C~~C~K~F~~~ 170 (477)
+|...|++| ++.|..+.-.....|. . .+..| +.|+.||.+|...
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 467899999 8999877555544443 1 12233 5899999988754
No 85
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=50.91 E-value=10 Score=25.86 Aligned_cols=12 Identities=25% Similarity=0.816 Sum_probs=5.9
Q ss_pred cccccccccCCh
Q 011807 159 KCEKCSKVYAVQ 170 (477)
Q Consensus 159 ~C~~C~K~F~~~ 170 (477)
.|+.|+..|.-.
T Consensus 4 ~CP~C~~~f~v~ 15 (37)
T PF13719_consen 4 TCPNCQTRFRVP 15 (37)
T ss_pred ECCCCCceEEcC
Confidence 455555555443
No 86
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=50.77 E-value=9.4 Score=25.87 Aligned_cols=12 Identities=25% Similarity=0.844 Sum_probs=5.5
Q ss_pred cccccccccCCh
Q 011807 159 KCEKCSKVYAVQ 170 (477)
Q Consensus 159 ~C~~C~K~F~~~ 170 (477)
.|+.|+..|.-.
T Consensus 4 ~CP~C~~~~~v~ 15 (38)
T TIGR02098 4 QCPNCKTSFRVV 15 (38)
T ss_pred ECCCCCCEEEeC
Confidence 455555444433
No 87
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=50.53 E-value=27 Score=30.18 Aligned_cols=89 Identities=15% Similarity=0.268 Sum_probs=49.2
Q ss_pred CceecCCCCccccChhHHHHHHhhcC-CCcc-ccccccccccccCcccCCCCCCCCCCCCCcccCchhhhhhhhhccccc
Q 011807 79 NRFVCEVCNKGFQRDQNLQLHRRGHN-LPWK-LKQRSNKDIIKKKAYVCPEPSCVHHHPSRALGDLTGIKKHFCRKHGER 156 (477)
Q Consensus 79 k~~~C~~Cgk~F~~~~~L~~H~r~H~-~p~~-c~~~~~~~~~~~k~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Htgek 156 (477)
-|.+|++|+-.......|.+- .|+ .|.+ ..+-.... ......|--| .+.|........- .-....
T Consensus 14 LP~~CpiCgLtLVss~HLARS--yHHLfPl~~f~ev~~~~--~~~~~~C~~C-------~~~f~~~~~~~~~--~~~~~~ 80 (112)
T TIGR00622 14 LPVECPICGLTLILSTHLARS--YHHLFPLKAFQEIPLEE--YNGSRFCFGC-------QGPFPKPPVSPFD--ELKDSH 80 (112)
T ss_pred CCCcCCcCCCEEeccchHHHh--hhccCCCcccccccccc--cCCCCcccCc-------CCCCCCccccccc--cccccc
Confidence 467899999998888877754 333 1111 10000000 1112236666 7777654321100 012234
Q ss_pred cccccccccccCChhHhhhhhccc
Q 011807 157 KWKCEKCSKVYAVQSDWKAHSKTC 180 (477)
Q Consensus 157 pf~C~~C~K~F~~~s~L~~H~r~~ 180 (477)
.|+|+.|.+.|-..-++..|...|
T Consensus 81 ~y~C~~C~~~FC~dCD~fiHe~Lh 104 (112)
T TIGR00622 81 RYVCAVCKNVFCVDCDVFVHESLH 104 (112)
T ss_pred ceeCCCCCCccccccchhhhhhcc
Confidence 688999999998888888776443
No 88
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=49.57 E-value=13 Score=33.52 Aligned_cols=35 Identities=20% Similarity=0.507 Sum_probs=17.3
Q ss_pred ccccccccccccCChhHhhhhhcccCCcceecC-CCCcc
Q 011807 156 RKWKCEKCSKVYAVQSDWKAHSKTCGTREYRCD-CGTLF 193 (477)
Q Consensus 156 kpf~C~~C~K~F~~~s~L~~H~r~~gekpy~C~-Cgk~F 193 (477)
.-|.|+.|++.|.....+..- ..+..|.|+ ||...
T Consensus 98 ~~Y~Cp~C~~~y~~~ea~~~~---d~~~~f~Cp~Cg~~l 133 (147)
T smart00531 98 AYYKCPNCQSKYTFLEANQLL---DMDGTFTCPRCGEEL 133 (147)
T ss_pred cEEECcCCCCEeeHHHHHHhc---CCCCcEECCCCCCEE
Confidence 346666666666644333220 012236666 66554
No 89
>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=47.98 E-value=11 Score=33.26 Aligned_cols=13 Identities=23% Similarity=0.266 Sum_probs=6.5
Q ss_pred cceecC-CCCcccC
Q 011807 183 REYRCD-CGTLFSR 195 (477)
Q Consensus 183 kpy~C~-Cgk~F~~ 195 (477)
.|..|+ ||..|.-
T Consensus 25 ~p~vcP~cg~~~~~ 38 (129)
T TIGR02300 25 RPAVSPYTGEQFPP 38 (129)
T ss_pred CCccCCCcCCccCc
Confidence 445555 5555433
No 90
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=47.14 E-value=9.6 Score=31.30 Aligned_cols=11 Identities=55% Similarity=1.506 Sum_probs=6.8
Q ss_pred ccccccccccC
Q 011807 158 WKCEKCSKVYA 168 (477)
Q Consensus 158 f~C~~C~K~F~ 168 (477)
|+|..|+..|.
T Consensus 54 W~C~kCg~~fA 64 (89)
T COG1997 54 WKCRKCGAKFA 64 (89)
T ss_pred EEcCCCCCeec
Confidence 66666666654
No 91
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=46.33 E-value=13 Score=39.12 Aligned_cols=39 Identities=23% Similarity=0.564 Sum_probs=26.7
Q ss_pred cccccccccccccccCChhHhhhhhcccCCcceecC-CCCcc
Q 011807 153 HGERKWKCEKCSKVYAVQSDWKAHSKTCGTREYRCD-CGTLF 193 (477)
Q Consensus 153 tgekpf~C~~C~K~F~~~s~L~~H~r~~gekpy~C~-Cgk~F 193 (477)
+...-|.|+.|.+.|+....++.= .-.+-.|.|. |+--.
T Consensus 124 t~~~~Y~Cp~C~kkyt~Lea~~L~--~~~~~~F~C~~C~gel 163 (436)
T KOG2593|consen 124 TNVAGYVCPNCQKKYTSLEALQLL--DNETGEFHCENCGGEL 163 (436)
T ss_pred cccccccCCccccchhhhHHHHhh--cccCceEEEecCCCch
Confidence 344579999999999877665421 1334579999 97543
No 92
>PHA00626 hypothetical protein
Probab=45.80 E-value=9.7 Score=28.62 Aligned_cols=11 Identities=18% Similarity=0.525 Sum_probs=5.7
Q ss_pred ccccccccccC
Q 011807 158 WKCEKCSKVYA 168 (477)
Q Consensus 158 f~C~~C~K~F~ 168 (477)
|+|+.|+..|+
T Consensus 24 YkCkdCGY~ft 34 (59)
T PHA00626 24 YVCCDCGYNDS 34 (59)
T ss_pred eEcCCCCCeec
Confidence 55555555544
No 93
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=40.64 E-value=15 Score=33.99 Aligned_cols=24 Identities=33% Similarity=0.668 Sum_probs=17.5
Q ss_pred CcccCCCCCCCCCCCCCcccCchhhhhhhhhccccccccccccc
Q 011807 121 KAYVCPEPSCVHHHPSRALGDLTGIKKHFCRKHGERKWKCEKCS 164 (477)
Q Consensus 121 k~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Htgekpf~C~~C~ 164 (477)
+.|.|++| |. +|-|+-|.+|++|+
T Consensus 133 ~~~vC~vC-------Gy-------------~~~ge~P~~CPiCg 156 (166)
T COG1592 133 KVWVCPVC-------GY-------------THEGEAPEVCPICG 156 (166)
T ss_pred CEEEcCCC-------CC-------------cccCCCCCcCCCCC
Confidence 36888888 53 34567788888887
No 94
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=39.48 E-value=21 Score=25.83 Aligned_cols=25 Identities=40% Similarity=0.735 Sum_probs=20.3
Q ss_pred CceecCCCCccccCh-----hHHHHHHh-hc
Q 011807 79 NRFVCEVCNKGFQRD-----QNLQLHRR-GH 103 (477)
Q Consensus 79 k~~~C~~Cgk~F~~~-----~~L~~H~r-~H 103 (477)
..-.|..|++.+... ++|.+|++ .|
T Consensus 17 ~~a~C~~C~~~l~~~~~~gTs~L~rHl~~~h 47 (50)
T smart00614 17 QRAKCKYCGKKLSRSSKGGTSNLRRHLRRKH 47 (50)
T ss_pred eEEEecCCCCEeeeCCCCCcHHHHHHHHhHC
Confidence 356899999999776 58999998 45
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=39.29 E-value=21 Score=30.71 Aligned_cols=30 Identities=27% Similarity=0.604 Sum_probs=23.4
Q ss_pred cccccccccccCChhHhhhhhcccCCcceecC-CCCcccCh
Q 011807 157 KWKCEKCSKVYAVQSDWKAHSKTCGTREYRCD-CGTLFSRK 196 (477)
Q Consensus 157 pf~C~~C~K~F~~~s~L~~H~r~~gekpy~C~-Cgk~F~~~ 196 (477)
...|+.||++|... +..|.+|+ ||..|.-.
T Consensus 9 KR~Cp~CG~kFYDL----------nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 9 KRTCPSCGAKFYDL----------NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred cccCCCCcchhccC----------CCCCccCCCCCCccCcc
Confidence 46899999988643 23688999 99999765
No 96
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=39.12 E-value=54 Score=28.35 Aligned_cols=77 Identities=16% Similarity=0.248 Sum_probs=43.8
Q ss_pred cCcccCCCCCCCCCCCCCcccCchhhhhhhhhc-----cccc-------cccccccccccCChhHhhhhhcccCCcceec
Q 011807 120 KKAYVCPEPSCVHHHPSRALGDLTGIKKHFCRK-----HGER-------KWKCEKCSKVYAVQSDWKAHSKTCGTREYRC 187 (477)
Q Consensus 120 ~k~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~H-----tgek-------pf~C~~C~K~F~~~s~L~~H~r~~gekpy~C 187 (477)
+-|-+|++| +-.......|.+-..-- -.|- .-.|--|.+.|........- .......|+|
T Consensus 13 ~LP~~CpiC-------gLtLVss~HLARSyHHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~~~-~~~~~~~y~C 84 (112)
T TIGR00622 13 ELPVECPIC-------GLTLILSTHLARSYHHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSPFD-ELKDSHRYVC 84 (112)
T ss_pred CCCCcCCcC-------CCEEeccchHHHhhhccCCCcccccccccccCCCCcccCcCCCCCCccccccc-ccccccceeC
Confidence 457788888 76666666665532110 0111 12388888888765321100 0133457999
Q ss_pred C-CCCcccChhHHHHHHH
Q 011807 188 D-CGTLFSRKDSFITHRA 204 (477)
Q Consensus 188 ~-Cgk~F~~~~~L~~H~~ 204 (477)
+ |...|-..-+.-.|..
T Consensus 85 ~~C~~~FC~dCD~fiHe~ 102 (112)
T TIGR00622 85 AVCKNVFCVDCDVFVHES 102 (112)
T ss_pred CCCCCccccccchhhhhh
Confidence 9 9988876655555543
No 97
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=38.91 E-value=12 Score=36.74 Aligned_cols=50 Identities=20% Similarity=0.468 Sum_probs=39.3
Q ss_pred cccCCCCCCCCCCCCCcccCchhhhhhhhhccccccccccccccccCChhHhhhhhcc-cC
Q 011807 122 AYVCPEPSCVHHHPSRALGDLTGIKKHFCRKHGERKWKCEKCSKVYAVQSDWKAHSKT-CG 181 (477)
Q Consensus 122 ~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Htgekpf~C~~C~K~F~~~s~L~~H~r~-~g 181 (477)
-|.|..| |.... +..+.+|+-+.++ .-|.|-.|++.|.+ .+.+.|..- +.
T Consensus 3 ~FtCnvC-------gEsvK-Kp~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~kCITE 53 (276)
T KOG2186|consen 3 FFTCNVC-------GESVK-KPQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTKCITE 53 (276)
T ss_pred EEehhhh-------hhhcc-ccchHHHHHhccC-CeeEEeeccccccc-chhhhhhhhcch
Confidence 3789998 65543 5667889988887 67999999999988 777888775 43
No 98
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=38.70 E-value=11 Score=29.87 Aligned_cols=39 Identities=15% Similarity=0.434 Sum_probs=19.0
Q ss_pred ccccccccccCChhHhhhhhcccCCcceecC---CCCcccChh
Q 011807 158 WKCEKCSKVYAVQSDWKAHSKTCGTREYRCD---CGTLFSRKD 197 (477)
Q Consensus 158 f~C~~C~K~F~~~s~L~~H~r~~gekpy~C~---Cgk~F~~~~ 197 (477)
+.|+.|+..-.....-..+.. ..++-+.|. ||.+|....
T Consensus 2 m~CP~Cg~~a~irtSr~~s~~-~~~~Y~qC~N~eCg~tF~t~e 43 (72)
T PRK09678 2 FHCPLCQHAAHARTSRYITDT-TKERYHQCQNVNCSATFITYE 43 (72)
T ss_pred ccCCCCCCccEEEEChhcChh-hheeeeecCCCCCCCEEEEEE
Confidence 456677654422222111111 334556774 777776653
No 99
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=38.40 E-value=17 Score=41.13 Aligned_cols=8 Identities=38% Similarity=0.355 Sum_probs=5.0
Q ss_pred chhccccc
Q 011807 410 TRDFLGLT 417 (477)
Q Consensus 410 t~dflg~~ 417 (477)
|+|||-+-
T Consensus 870 tl~f~~~l 877 (1374)
T PTZ00303 870 TLDFFHEL 877 (1374)
T ss_pred HHHHHHHH
Confidence 66777643
No 100
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=38.35 E-value=38 Score=38.16 Aligned_cols=27 Identities=30% Similarity=0.528 Sum_probs=24.7
Q ss_pred CCceecCCCCccccChhHHHHHHhhcC
Q 011807 78 TNRFVCEVCNKGFQRDQNLQLHRRGHN 104 (477)
Q Consensus 78 ~k~~~C~~Cgk~F~~~~~L~~H~r~H~ 104 (477)
...|.|.+|+|.|.....+..||++|.
T Consensus 790 ~giFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 790 TGIFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred CceeehHHHHHHHHHHhhhhHHHHHHH
Confidence 357999999999999999999999996
No 101
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=38.23 E-value=50 Score=34.44 Aligned_cols=77 Identities=19% Similarity=0.263 Sum_probs=51.2
Q ss_pred CCCceecCCCCccccChhHHHHHHhhcCCCccccccccccccccCcccCCCCCCCCCCCCCcccCchhhhhhhhhccccc
Q 011807 77 ATNRFVCEVCNKGFQRDQNLQLHRRGHNLPWKLKQRSNKDIIKKKAYVCPEPSCVHHHPSRALGDLTGIKKHFCRKHGER 156 (477)
Q Consensus 77 ~~k~~~C~~Cgk~F~~~~~L~~H~r~H~~p~~c~~~~~~~~~~~k~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Htgek 156 (477)
...|-.|-.|++.|.+...-..||..++..+ +.++.| ......|...+...- .+
T Consensus 163 e~~Pt~CLfC~~~~k~~e~~~~HM~~~Hgff----------IPdreY---------------L~D~~GLl~YLgeKV-~~ 216 (390)
T KOG2785|consen 163 ELIPTDCLFCDKKSKSLEENLKHMFKEHGFF----------IPDREY---------------LTDEKGLLKYLGEKV-GI 216 (390)
T ss_pred ccCCcceeecCCCcccHHHHHHHHhhccCCc----------CCchHh---------------hhchhHHHHHHHHHh-cc
Confidence 3445789999999999999999999887221 112222 223334444433222 23
Q ss_pred cccccccc---cccCChhHhhhhhcc
Q 011807 157 KWKCEKCS---KVYAVQSDWKAHSKT 179 (477)
Q Consensus 157 pf~C~~C~---K~F~~~s~L~~H~r~ 179 (477)
-|.|..|. +.|......+.||..
T Consensus 217 ~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 217 GFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred CceEEEeccccCcccccHHHHHHHhh
Confidence 47888888 999999999999976
No 102
>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=38.10 E-value=34 Score=28.99 Aligned_cols=48 Identities=25% Similarity=0.523 Sum_probs=0.0
Q ss_pred ccccccccccccCChhHhhhhhcc-cCCcc------------------------------------------eec----C
Q 011807 156 RKWKCEKCSKVYAVQSDWKAHSKT-CGTRE------------------------------------------YRC----D 188 (477)
Q Consensus 156 kpf~C~~C~K~F~~~s~L~~H~r~-~gekp------------------------------------------y~C----~ 188 (477)
+-..|..|...... +.+..|++. |.... |.| .
T Consensus 10 ~vlIC~~C~~av~~-~~v~~HL~~~H~~~~~~~~~~i~~~~~~~~~l~~~~~~~~~p~~~~~Pi~gLp~~~G~~C~~~~~ 88 (109)
T PF12013_consen 10 RVLICRQCQYAVQP-SEVESHLRKRHHILKSQERQRIVEAIRQWPDLLPDPDDLQIPPDPSPPIPGLPVYDGYRCQCDPP 88 (109)
T ss_pred CEEEeCCCCcccCc-hHHHHHHHHhcccccHHHHHHHHHHHHhhhhcccCccccCCCCCCCCcCCCCCCCCCeeeecCCC
Q ss_pred -CCCcccChhHHHHHHH
Q 011807 189 -CGTLFSRKDSFITHRA 204 (477)
Q Consensus 189 -Cgk~F~~~~~L~~H~~ 204 (477)
|+..+.+...+++|.+
T Consensus 89 ~C~y~~~~~~~m~~H~~ 105 (109)
T PF12013_consen 89 HCGYITRSKKTMRKHWR 105 (109)
T ss_pred CCCcEeccHHHHHHHHH
No 103
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=37.91 E-value=17 Score=26.65 Aligned_cols=10 Identities=30% Similarity=1.102 Sum_probs=4.7
Q ss_pred cccccccccc
Q 011807 158 WKCEKCSKVY 167 (477)
Q Consensus 158 f~C~~C~K~F 167 (477)
|+|..|++.|
T Consensus 7 Y~C~~Cg~~~ 16 (49)
T COG1996 7 YKCARCGREV 16 (49)
T ss_pred EEhhhcCCee
Confidence 4444444444
No 104
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=37.49 E-value=17 Score=33.63 Aligned_cols=23 Identities=30% Similarity=0.839 Sum_probs=18.8
Q ss_pred cccccccccccCChhHhhhhhcccCCcceecC-CCC
Q 011807 157 KWKCEKCSKVYAVQSDWKAHSKTCGTREYRCD-CGT 191 (477)
Q Consensus 157 pf~C~~C~K~F~~~s~L~~H~r~~gekpy~C~-Cgk 191 (477)
-|.|++||..+. |+-|-+|+ ||.
T Consensus 134 ~~vC~vCGy~~~------------ge~P~~CPiCga 157 (166)
T COG1592 134 VWVCPVCGYTHE------------GEAPEVCPICGA 157 (166)
T ss_pred EEEcCCCCCccc------------CCCCCcCCCCCC
Confidence 599999997543 57899999 984
No 105
>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=37.49 E-value=30 Score=34.21 Aligned_cols=19 Identities=16% Similarity=0.412 Sum_probs=12.9
Q ss_pred CcceecC-CCCcccChhHHH
Q 011807 182 TREYRCD-CGTLFSRKDSFI 200 (477)
Q Consensus 182 ekpy~C~-Cgk~F~~~~~L~ 200 (477)
.+++.|+ |+........|.
T Consensus 207 ~k~~PCPKCg~et~eTkdLS 226 (314)
T PF06524_consen 207 GKPIPCPKCGYETQETKDLS 226 (314)
T ss_pred CCCCCCCCCCCcccccccce
Confidence 4778888 887766555554
No 106
>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=36.74 E-value=21 Score=32.63 Aligned_cols=17 Identities=6% Similarity=0.215 Sum_probs=8.4
Q ss_pred cccccccccccCChhHh
Q 011807 157 KWKCEKCSKVYAVQSDW 173 (477)
Q Consensus 157 pf~C~~C~K~F~~~s~L 173 (477)
-|.|+.|++.|+....+
T Consensus 109 ~Y~Cp~c~~r~tf~eA~ 125 (158)
T TIGR00373 109 FFICPNMCVRFTFNEAM 125 (158)
T ss_pred eEECCCCCcEeeHHHHH
Confidence 35555555555444443
No 107
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=36.26 E-value=24 Score=31.36 Aligned_cols=22 Identities=27% Similarity=0.412 Sum_probs=19.4
Q ss_pred ceecCCCCccccChhHHHHHHhhcC
Q 011807 80 RFVCEVCNKGFQRDQNLQLHRRGHN 104 (477)
Q Consensus 80 ~~~C~~Cgk~F~~~~~L~~H~r~H~ 104 (477)
-..|-+|||.|++ |++|+.+|.
T Consensus 76 ~IicLEDGkkfKS---LKRHL~t~~ 97 (148)
T COG4957 76 YIICLEDGKKFKS---LKRHLTTHY 97 (148)
T ss_pred eEEEeccCcchHH---HHHHHhccc
Confidence 4689999999975 999999987
No 108
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=34.80 E-value=28 Score=26.54 Aligned_cols=9 Identities=56% Similarity=1.442 Sum_probs=5.5
Q ss_pred cceecC-CCC
Q 011807 183 REYRCD-CGT 191 (477)
Q Consensus 183 kpy~C~-Cgk 191 (477)
.+|+|+ ||.
T Consensus 49 ~~Y~Cp~CGF 58 (61)
T COG2888 49 NPYRCPKCGF 58 (61)
T ss_pred CceECCCcCc
Confidence 466666 663
No 109
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=34.20 E-value=22 Score=33.30 Aligned_cols=31 Identities=19% Similarity=0.668 Sum_probs=17.2
Q ss_pred ccccccccccccCChhHhhhhhcccCCcceecC-CCCccc
Q 011807 156 RKWKCEKCSKVYAVQSDWKAHSKTCGTREYRCD-CGTLFS 194 (477)
Q Consensus 156 kpf~C~~C~K~F~~~s~L~~H~r~~gekpy~C~-Cgk~F~ 194 (477)
.-|.|+.|++.|+....+. .-|.|+ ||....
T Consensus 116 ~~Y~Cp~C~~rytf~eA~~--------~~F~Cp~Cg~~L~ 147 (178)
T PRK06266 116 MFFFCPNCHIRFTFDEAME--------YGFRCPQCGEMLE 147 (178)
T ss_pred CEEECCCCCcEEeHHHHhh--------cCCcCCCCCCCCe
Confidence 3466666666665554432 246666 665543
No 110
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=34.13 E-value=28 Score=26.53 Aligned_cols=9 Identities=44% Similarity=1.261 Sum_probs=5.8
Q ss_pred cceecC-CCC
Q 011807 183 REYRCD-CGT 191 (477)
Q Consensus 183 kpy~C~-Cgk 191 (477)
.+|+|+ ||.
T Consensus 47 ~~Y~CP~CGF 56 (59)
T PRK14890 47 NPYTCPKCGF 56 (59)
T ss_pred CceECCCCCC
Confidence 467776 764
No 111
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=33.87 E-value=16 Score=41.64 Aligned_cols=10 Identities=20% Similarity=0.600 Sum_probs=4.9
Q ss_pred cccccccccc
Q 011807 155 ERKWKCEKCS 164 (477)
Q Consensus 155 ekpf~C~~C~ 164 (477)
..|..|+.|+
T Consensus 473 ~~p~~Cp~Cg 482 (730)
T COG1198 473 PIPQSCPECG 482 (730)
T ss_pred CCCCCCCCCC
Confidence 3445555554
No 112
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=33.33 E-value=26 Score=23.47 Aligned_cols=10 Identities=30% Similarity=0.604 Sum_probs=5.9
Q ss_pred cccccccccc
Q 011807 156 RKWKCEKCSK 165 (477)
Q Consensus 156 kpf~C~~C~K 165 (477)
.|..|++|+.
T Consensus 17 ~p~~CP~Cg~ 26 (34)
T cd00729 17 APEKCPICGA 26 (34)
T ss_pred CCCcCcCCCC
Confidence 3556666654
No 113
>KOG4377 consensus Zn-finger protein [General function prediction only]
Probab=33.05 E-value=1.4e+02 Score=31.64 Aligned_cols=69 Identities=19% Similarity=0.439 Sum_probs=40.8
Q ss_pred ccCcccCCCCCCCCCCCCCcccCchhhhhhhhhccccc------------cccc--cccccccCChhHhhhhhcccCCc-
Q 011807 119 KKKAYVCPEPSCVHHHPSRALGDLTGIKKHFCRKHGER------------KWKC--EKCSKVYAVQSDWKAHSKTCGTR- 183 (477)
Q Consensus 119 ~~k~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Htgek------------pf~C--~~C~K~F~~~s~L~~H~r~~gek- 183 (477)
+..-|.|-.-.|. ++.+. +..+.+|..+|...+ -|.| ..|.| .-++...|...|.++
T Consensus 268 ~rEhyhcl~e~C~----ykr~~-k~DvirH~~~hkkrdnsL~dgf~rfs~syhC~~~~C~k---sTsdV~~h~nFht~~~ 339 (480)
T KOG4377|consen 268 GREHYHCLNEYCF----YKRGQ-KNDVIRHVEIHKKRDNSLIDGFHRFSNSYHCTGQICEK---STSDVLLHDNFHTDKR 339 (480)
T ss_pred cchhhcccCcccc----ccccc-hhhhHHHHHHHhhcccccccchhhcCccchhhhcccCc---ccccccccCccccccc
Confidence 4456777554442 34444 888999988876432 2567 45888 445556665543332
Q ss_pred -------ceecC-CC--CcccC
Q 011807 184 -------EYRCD-CG--TLFSR 195 (477)
Q Consensus 184 -------py~C~-Cg--k~F~~ 195 (477)
-|.|. |+ ..|..
T Consensus 340 n~GfrrthfhC~r~gCTdtfK~ 361 (480)
T KOG4377|consen 340 NNGFRRTHFHCQRIGCTDTFKD 361 (480)
T ss_pred cCceecceeEEeccCCcccccc
Confidence 37787 55 55553
No 114
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=32.30 E-value=16 Score=25.46 Aligned_cols=10 Identities=40% Similarity=1.085 Sum_probs=5.7
Q ss_pred ceecC-CCCcc
Q 011807 184 EYRCD-CGTLF 193 (477)
Q Consensus 184 py~C~-Cgk~F 193 (477)
-|+|. |+..|
T Consensus 28 fy~C~~C~~~w 38 (40)
T smart00440 28 FYVCTKCGHRW 38 (40)
T ss_pred EEEeCCCCCEe
Confidence 35666 66554
No 115
>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=31.62 E-value=40 Score=21.14 Aligned_cols=20 Identities=20% Similarity=0.468 Sum_probs=9.6
Q ss_pred ecC-CCCcccChhHHHHHHHHh
Q 011807 186 RCD-CGTLFSRKDSFITHRAFC 206 (477)
Q Consensus 186 ~C~-Cgk~F~~~~~L~~H~~~C 206 (477)
.|+ |++.+ ....+..|...|
T Consensus 3 ~CPiC~~~v-~~~~in~HLD~C 23 (26)
T smart00734 3 QCPVCFREV-PENLINSHLDSC 23 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHHHh
Confidence 355 55555 334455555433
No 116
>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=31.29 E-value=37 Score=31.07 Aligned_cols=34 Identities=12% Similarity=0.466 Sum_probs=26.7
Q ss_pred ccCcccCCCCCCCCCCCCCcccCchhhhhhhhhccccccccccccccccC
Q 011807 119 KKKAYVCPEPSCVHHHPSRALGDLTGIKKHFCRKHGERKWKCEKCSKVYA 168 (477)
Q Consensus 119 ~~k~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Htgekpf~C~~C~K~F~ 168 (477)
...-|.|+.| +..|+....+. .-|.|+.||....
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 5577999999 88888777774 2599999997643
No 117
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=30.12 E-value=41 Score=30.27 Aligned_cols=39 Identities=15% Similarity=0.383 Sum_probs=26.3
Q ss_pred ccCcccCCCCCCCCCCCCCcccCchhhhhhhhhccccccccccccccccC
Q 011807 119 KKKAYVCPEPSCVHHHPSRALGDLTGIKKHFCRKHGERKWKCEKCSKVYA 168 (477)
Q Consensus 119 ~~k~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Htgekpf~C~~C~K~F~ 168 (477)
...-|.|+.| ++.|.....+..- .. +..|.|+.|+....
T Consensus 96 ~~~~Y~Cp~C-------~~~y~~~ea~~~~---d~-~~~f~Cp~Cg~~l~ 134 (147)
T smart00531 96 NNAYYKCPNC-------QSKYTFLEANQLL---DM-DGTFTCPRCGEELE 134 (147)
T ss_pred CCcEEECcCC-------CCEeeHHHHHHhc---CC-CCcEECCCCCCEEE
Confidence 4567999999 8888765444321 11 33499999998653
No 118
>KOG4317 consensus Predicted Zn-finger protein [Function unknown]
Probab=29.48 E-value=13 Score=37.57 Aligned_cols=13 Identities=23% Similarity=0.915 Sum_probs=7.4
Q ss_pred ccccccccccCCh
Q 011807 158 WKCEKCSKVYAVQ 170 (477)
Q Consensus 158 f~C~~C~K~F~~~ 170 (477)
|+|+-|+..|.+.
T Consensus 20 YtCPRCn~~YCsl 32 (383)
T KOG4317|consen 20 YTCPRCNLLYCSL 32 (383)
T ss_pred ccCCCCCccceee
Confidence 6666666555443
No 119
>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=29.41 E-value=24 Score=25.57 Aligned_cols=10 Identities=20% Similarity=0.551 Sum_probs=5.8
Q ss_pred cccccccccc
Q 011807 156 RKWKCEKCSK 165 (477)
Q Consensus 156 kpf~C~~C~K 165 (477)
..-.|+.|+.
T Consensus 25 ~~~~CP~Cg~ 34 (52)
T TIGR02605 25 PLATCPECGG 34 (52)
T ss_pred CCCCCCCCCC
Confidence 3455777764
No 120
>KOG4377 consensus Zn-finger protein [General function prediction only]
Probab=29.09 E-value=47 Score=34.95 Aligned_cols=81 Identities=11% Similarity=0.240 Sum_probs=45.2
Q ss_pred CCCceecC--CCCccccChhHHHHHHhhcCCCccccccccc-cccccCcccCCCCCCCCCCCCCcccCchhhhhhhhhcc
Q 011807 77 ATNRFVCE--VCNKGFQRDQNLQLHRRGHNLPWKLKQRSNK-DIIKKKAYVCPEPSCVHHHPSRALGDLTGIKKHFCRKH 153 (477)
Q Consensus 77 ~~k~~~C~--~Cgk~F~~~~~L~~H~r~H~~p~~c~~~~~~-~~~~~k~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Ht 153 (477)
...-|.|. .|+..+-.+..+.+|...|... +..... .+.-...|.|..-.| .+ ..+.+..|-..|+
T Consensus 268 ~rEhyhcl~e~C~ykr~~k~DvirH~~~hkkr---dnsL~dgf~rfs~syhC~~~~C-----~k---sTsdV~~h~nFht 336 (480)
T KOG4377|consen 268 GREHYHCLNEYCFYKRGQKNDVIRHVEIHKKR---DNSLIDGFHRFSNSYHCTGQIC-----EK---STSDVLLHDNFHT 336 (480)
T ss_pred cchhhcccCccccccccchhhhHHHHHHHhhc---ccccccchhhcCccchhhhccc-----Cc---ccccccccCcccc
Confidence 34557784 5988887788999999988510 000000 000111256654434 66 4556667776665
Q ss_pred cc-------ccccccccc--cccC
Q 011807 154 GE-------RKWKCEKCS--KVYA 168 (477)
Q Consensus 154 ge-------kpf~C~~C~--K~F~ 168 (477)
.. ..|.|.-|+ -.|.
T Consensus 337 ~~~n~GfrrthfhC~r~gCTdtfK 360 (480)
T KOG4377|consen 337 DKRNNGFRRTHFHCQRIGCTDTFK 360 (480)
T ss_pred ccccCceecceeEEeccCCccccc
Confidence 32 247787776 4444
No 121
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=29.08 E-value=28 Score=28.87 Aligned_cols=11 Identities=45% Similarity=1.349 Sum_probs=6.4
Q ss_pred ccccccccccC
Q 011807 158 WKCEKCSKVYA 168 (477)
Q Consensus 158 f~C~~C~K~F~ 168 (477)
|.|..|++.|.
T Consensus 55 W~C~~C~~~~A 65 (90)
T PTZ00255 55 WRCKGCKKTVA 65 (90)
T ss_pred EEcCCCCCEEe
Confidence 55666665554
No 122
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=28.97 E-value=50 Score=32.46 Aligned_cols=58 Identities=21% Similarity=0.435 Sum_probs=35.7
Q ss_pred ccCcccCCCCCCCCCCCCCcccCchhhhhhhhhccccccccccccccccCChhHhhhhhcccCCcceecC-CCCcccC
Q 011807 119 KKKAYVCPEPSCVHHHPSRALGDLTGIKKHFCRKHGERKWKCEKCSKVYAVQSDWKAHSKTCGTREYRCD-CGTLFSR 195 (477)
Q Consensus 119 ~~k~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Htgekpf~C~~C~K~F~~~s~L~~H~r~~gekpy~C~-Cgk~F~~ 195 (477)
..+.|.|..| .... ..|.-....--+|..|.+.|.--.. -+..|--.|.|. |+..|.-
T Consensus 109 ~drqFaC~~C-------d~~W--------wRrvp~rKeVSRCr~C~~rYDPVP~----dkmwG~aef~C~~C~h~F~G 167 (278)
T PF15135_consen 109 VDRQFACSSC-------DHMW--------WRRVPQRKEVSRCRKCRKRYDPVPC----DKMWGIAEFHCPKCRHNFRG 167 (278)
T ss_pred cceeeecccc-------chHH--------HhccCcccccccccccccccCCCcc----ccccceeeeecccccccchh
Confidence 4478999998 3211 1122222334689999988764331 122566679999 9999964
No 123
>PRK04023 DNA polymerase II large subunit; Validated
Probab=27.97 E-value=51 Score=38.63 Aligned_cols=11 Identities=36% Similarity=0.742 Sum_probs=6.5
Q ss_pred CceecCCCCcc
Q 011807 79 NRFVCEVCNKG 89 (477)
Q Consensus 79 k~~~C~~Cgk~ 89 (477)
....|..||..
T Consensus 625 g~RfCpsCG~~ 635 (1121)
T PRK04023 625 GRRKCPSCGKE 635 (1121)
T ss_pred cCccCCCCCCc
Confidence 34556666664
No 124
>PF01096 TFIIS_C: Transcription factor S-II (TFIIS); InterPro: IPR001222 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIs (TFIIS). In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least eight different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, -IIH and -IIS []. During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. Such backtracking involves extrusion of the RNA 3'-end into the pore, and can lead to transcriptional arrest. Escape from arrest requires cleavage of the extruded RNA with the help of TFIIS, which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites []. TFIIS extends from the polymerase surface via a pore to the internal active site. Two essential and invariant acidic residues in a TFIIS loop complement the Pol II active site and could position a metal ion and a water molecule for hydrolytic RNA cleavage. TFIIS also induces extensive structural changes in Pol II that would realign nucleic acids in the active centre. TFIIS is a protein of about 300 amino acids. It contains three regions: a variable N-terminal domain not required for TFIIS activity; a conserved central domain required for Pol II binding; and a conserved C-terminal C4-type zinc finger essential for RNA cleavage. The zinc finger folds in a conformation termed a zinc ribbon [] characterised by a three-stranded antiparallel beta-sheet and two beta-hairpins. A backbone model for Pol II-TFIIS complex was obtained from X-ray analysis. It shows that a beta hairpin protrudes from the zinc finger and complements the pol II active site []. Some viral proteins also contain the TFIIS zinc ribbon C-terminal domain. The Vaccinia virus protein, unlike its eukaryotic homologue, is an integral RNA polymerase subunit rather than a readily separable transcription factor []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0006351 transcription, DNA-dependent; PDB: 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I 3I4M_I ....
Probab=27.84 E-value=10 Score=26.27 Aligned_cols=9 Identities=44% Similarity=1.231 Sum_probs=5.0
Q ss_pred eecC-CCCcc
Q 011807 185 YRCD-CGTLF 193 (477)
Q Consensus 185 y~C~-Cgk~F 193 (477)
|.|. |++.|
T Consensus 29 y~C~~C~~~w 38 (39)
T PF01096_consen 29 YVCCNCGHRW 38 (39)
T ss_dssp EEESSSTEEE
T ss_pred EEeCCCCCee
Confidence 5555 65554
No 125
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=27.83 E-value=42 Score=31.39 Aligned_cols=35 Identities=11% Similarity=0.401 Sum_probs=26.5
Q ss_pred ccCcccCCCCCCCCCCCCCcccCchhhhhhhhhccccccccccccccccCC
Q 011807 119 KKKAYVCPEPSCVHHHPSRALGDLTGIKKHFCRKHGERKWKCEKCSKVYAV 169 (477)
Q Consensus 119 ~~k~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Htgekpf~C~~C~K~F~~ 169 (477)
...-|.|+.| ++.|.....+. .-|.|+.||.....
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 4567999998 88887777653 35999999976543
No 126
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=27.81 E-value=24 Score=28.04 Aligned_cols=21 Identities=24% Similarity=0.532 Sum_probs=15.8
Q ss_pred ccccccccc--ccccccCChhHh
Q 011807 153 HGERKWKCE--KCSKVYAVQSDW 173 (477)
Q Consensus 153 tgekpf~C~--~C~K~F~~~s~L 173 (477)
..++-++|. +|+.+|.....+
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 127
>TIGR01384 TFS_arch transcription factor S, archaeal. There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.
Probab=27.66 E-value=28 Score=29.18 Aligned_cols=37 Identities=27% Similarity=0.617 Sum_probs=22.2
Q ss_pred cccccccccccCChhHhhhhhcccC---CcceecC-CCCcccC
Q 011807 157 KWKCEKCSKVYAVQSDWKAHSKTCG---TREYRCD-CGTLFSR 195 (477)
Q Consensus 157 pf~C~~C~K~F~~~s~L~~H~r~~g---ekpy~C~-Cgk~F~~ 195 (477)
..+|+.|+..-.....++ .|.-+ ..-|.|. |+..++.
T Consensus 62 ~~~Cp~Cg~~~a~f~~~Q--~RsadE~~T~fy~C~~C~~~w~~ 102 (104)
T TIGR01384 62 RVECPKCGHKEAYYWLLQ--TRRADEPETRFYKCTKCGYVWRE 102 (104)
T ss_pred cCCCCCCCCCeeEEEEec--cCCCCCCcEEEEEeCCCCCeeEe
Confidence 378999986544333322 22222 2459999 9988753
No 128
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=27.30 E-value=32 Score=31.30 Aligned_cols=32 Identities=31% Similarity=0.854 Sum_probs=22.4
Q ss_pred ccccccccccccCChhHhhhhhcc-cCCcceecC-CCCc
Q 011807 156 RKWKCEKCSKVYAVQSDWKAHSKT-CGTREYRCD-CGTL 192 (477)
Q Consensus 156 kpf~C~~C~K~F~~~s~L~~H~r~-~gekpy~C~-Cgk~ 192 (477)
-+|.|. |+..|-+. ++|-.. -|+ .|.|. |+-.
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 468998 98876543 455555 566 89998 8754
No 129
>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=27.19 E-value=41 Score=32.44 Aligned_cols=26 Identities=27% Similarity=0.528 Sum_probs=21.2
Q ss_pred cCCcceecC-CCCcccChhHHHHHHHH
Q 011807 180 CGTREYRCD-CGTLFSRKDSFITHRAF 205 (477)
Q Consensus 180 ~gekpy~C~-Cgk~F~~~~~L~~H~~~ 205 (477)
.++..|.|. |+|.|.-..-.++|+..
T Consensus 73 ~~~~K~~C~lc~KlFkg~eFV~KHI~n 99 (214)
T PF04959_consen 73 EDEDKWRCPLCGKLFKGPEFVRKHIFN 99 (214)
T ss_dssp SSSEEEEE-SSS-EESSHHHHHHHHHH
T ss_pred HcCCEECCCCCCcccCChHHHHHHHhh
Confidence 466789999 99999999999999985
No 130
>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=26.69 E-value=39 Score=30.80 Aligned_cols=37 Identities=27% Similarity=0.497 Sum_probs=16.0
Q ss_pred ccccccccccccCC------hhHhhhhhcc--c-----------CCcceecC-CCCc
Q 011807 156 RKWKCEKCSKVYAV------QSDWKAHSKT--C-----------GTREYRCD-CGTL 192 (477)
Q Consensus 156 kpf~C~~C~K~F~~------~s~L~~H~r~--~-----------gekpy~C~-Cgk~ 192 (477)
--.+|..|+|.|-+ .+.+..|+.. | |+....|- ||-+
T Consensus 13 ~vv~C~~c~kWFCNg~~~~s~SHIv~HLv~srh~ev~LH~~s~lgdt~leCy~Cg~~ 69 (152)
T PF09416_consen 13 CVVKCNTCNKWFCNGRGNTSGSHIVNHLVRSRHKEVSLHPDSPLGDTVLECYNCGSR 69 (152)
T ss_dssp CEEEETTTTEEEES--TTSSS-HHHHHHHHHT---EEE-TTSTT-S-B---TTT---
T ss_pred cEeEcCCCCcEeecCCCCCcccHHHHHHHHccCCceeeCCCCCCCCcEEEEEecCCC
Confidence 34677777777743 4455666543 3 23457787 7644
No 131
>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=26.07 E-value=49 Score=29.21 Aligned_cols=35 Identities=17% Similarity=0.305 Sum_probs=25.5
Q ss_pred cccCCCCCCCCCCCCCcccCchhhhhhhhhccccccccccccccccCChhHhh
Q 011807 122 AYVCPEPSCVHHHPSRALGDLTGIKKHFCRKHGERKWKCEKCSKVYAVQSDWK 174 (477)
Q Consensus 122 ~~~C~~C~C~~~~~~k~F~~~~~L~~H~r~Htgekpf~C~~C~K~F~~~s~L~ 174 (477)
...|+.| ++.|-.. +..|..|++||..|.....++
T Consensus 9 Kr~Cp~c-------g~kFYDL-----------nk~p~vcP~cg~~~~~~~~~~ 43 (129)
T TIGR02300 9 KRICPNT-------GSKFYDL-----------NRRPAVSPYTGEQFPPEEALK 43 (129)
T ss_pred cccCCCc-------Ccccccc-----------CCCCccCCCcCCccCcchhhc
Confidence 4589998 8877443 346899999999987664444
No 132
>TIGR00280 L37a ribosomal protein L37a. This model finds eukaryotic ribosomal protein L37a and its archaeal orthologs. The nomeclature is tricky because eukaryotes have proteins called both L37 and L37a.
Probab=26.03 E-value=32 Score=28.57 Aligned_cols=11 Identities=45% Similarity=1.413 Sum_probs=6.2
Q ss_pred ccccccccccC
Q 011807 158 WKCEKCSKVYA 168 (477)
Q Consensus 158 f~C~~C~K~F~ 168 (477)
|+|..|++.|.
T Consensus 54 W~C~~C~~~~A 64 (91)
T TIGR00280 54 WTCRKCGAKFA 64 (91)
T ss_pred EEcCCCCCEEe
Confidence 55555555554
No 133
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=25.52 E-value=27 Score=30.52 Aligned_cols=23 Identities=26% Similarity=0.583 Sum_probs=20.6
Q ss_pred cccccccccccCChhHhhhhhcc
Q 011807 157 KWKCEKCSKVYAVQSDWKAHSKT 179 (477)
Q Consensus 157 pf~C~~C~K~F~~~s~L~~H~r~ 179 (477)
.|.|-+|.+.|.+...|+.|.++
T Consensus 57 qfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 57 QFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred eeehhhhhhhhcchHHHHHHHhc
Confidence 48899999999999999999887
No 134
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.47 E-value=29 Score=29.80 Aligned_cols=12 Identities=17% Similarity=0.086 Sum_probs=5.7
Q ss_pred cccccccccccc
Q 011807 156 RKWKCEKCSKVY 167 (477)
Q Consensus 156 kpf~C~~C~K~F 167 (477)
.|..|++|||.|
T Consensus 25 dPiVsPytG~s~ 36 (129)
T COG4530 25 DPIVSPYTGKSY 36 (129)
T ss_pred CccccCcccccc
Confidence 344444444444
No 135
>PLN03238 probable histone acetyltransferase MYST; Provisional
Probab=25.14 E-value=49 Score=33.29 Aligned_cols=26 Identities=35% Similarity=0.764 Sum_probs=14.4
Q ss_pred cceecC-CCCcccChhHHHHHHHHhhh
Q 011807 183 REYRCD-CGTLFSRKDSFITHRAFCDA 208 (477)
Q Consensus 183 kpy~C~-Cgk~F~~~~~L~~H~~~C~k 208 (477)
.-|.|+ |-+-|.....|.+|+..|..
T Consensus 47 ~lyiCe~Clky~~~~~~l~~H~~~C~~ 73 (290)
T PLN03238 47 KLYICEYCLKYMRKKKSLLRHLAKCDI 73 (290)
T ss_pred eEEEcCCCcchhCCHHHHHHHHHhCCC
Confidence 345555 55555555555555555443
No 136
>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=25.13 E-value=31 Score=23.92 Aligned_cols=22 Identities=18% Similarity=0.569 Sum_probs=10.9
Q ss_pred hhhhhhhccccccccccccccc
Q 011807 145 IKKHFCRKHGERKWKCEKCSKV 166 (477)
Q Consensus 145 L~~H~r~Htgekpf~C~~C~K~ 166 (477)
|.-+.....+.+.|+|.+|+..
T Consensus 12 lNp~~~~~~~~~~w~C~~C~~~ 33 (40)
T PF04810_consen 12 LNPFCQFDDGGKTWICNFCGTK 33 (40)
T ss_dssp S-TTSEEETTTTEEEETTT--E
T ss_pred ECCcceEcCCCCEEECcCCCCc
Confidence 3334444445566777777653
No 137
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=24.16 E-value=36 Score=23.12 Aligned_cols=9 Identities=22% Similarity=0.645 Sum_probs=4.7
Q ss_pred ccccccccc
Q 011807 157 KWKCEKCSK 165 (477)
Q Consensus 157 pf~C~~C~K 165 (477)
.-.|+.|+.
T Consensus 26 ~~~CP~Cg~ 34 (41)
T smart00834 26 LATCPECGG 34 (41)
T ss_pred CCCCCCCCC
Confidence 345555554
No 138
>KOG2272 consensus Focal adhesion protein PINCH-1, contains LIM domains [Signal transduction mechanisms; Cytoskeleton]
Probab=23.58 E-value=32 Score=33.78 Aligned_cols=17 Identities=18% Similarity=0.641 Sum_probs=11.9
Q ss_pred cceecC-CCCcccChhHH
Q 011807 183 REYRCD-CGTLFSRKDSF 199 (477)
Q Consensus 183 kpy~C~-Cgk~F~~~~~L 199 (477)
.-|+|. |.|-|.-...+
T Consensus 220 eHFvCa~CekPFlGHrHY 237 (332)
T KOG2272|consen 220 EHFVCAKCEKPFLGHRHY 237 (332)
T ss_pred hheeehhcCCcccchhhh
Confidence 348898 99888765443
No 139
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=23.22 E-value=37 Score=24.11 Aligned_cols=11 Identities=18% Similarity=0.456 Sum_probs=6.0
Q ss_pred ccccccccccc
Q 011807 157 KWKCEKCSKVY 167 (477)
Q Consensus 157 pf~C~~C~K~F 167 (477)
.++|+.||..+
T Consensus 21 ~~~Cp~CG~~~ 31 (46)
T PRK00398 21 GVRCPYCGYRI 31 (46)
T ss_pred ceECCCCCCeE
Confidence 45666665433
No 140
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=22.82 E-value=57 Score=24.06 Aligned_cols=27 Identities=15% Similarity=0.316 Sum_probs=14.8
Q ss_pred chhhhhhhhhccccccccccc----cccccC
Q 011807 142 LTGIKKHFCRKHGERKWKCEK----CSKVYA 168 (477)
Q Consensus 142 ~~~L~~H~r~Htgekpf~C~~----C~K~F~ 168 (477)
+..|..|+...-..++..|.+ |...+.
T Consensus 23 r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~ 53 (60)
T PF02176_consen 23 RKELDDHLENECPKRPVPCPYSPYGCKERVP 53 (60)
T ss_dssp CCCHHHHHHTTSTTSEEE-SS----S--EEE
T ss_pred HHHHHHHHHccCCCCcEECCCCCCCCCCccc
Confidence 456667766555556666766 666554
No 141
>PF02462 Opacity: Opacity family porin protein; InterPro: IPR003394 Pathogenic Neisseria spp. possess a repertoire of phase-variable opacity proteins that mediate various pathogen/host cell interactions []. These proteins are integral membrane proteins related to other porins and the Haemophilus influenzae OpA protein.; GO: 0015288 porin activity, 0016020 membrane; PDB: 1P4T_A.
Probab=22.70 E-value=20 Score=31.91 Aligned_cols=28 Identities=32% Similarity=0.579 Sum_probs=23.5
Q ss_pred ccccCCCCCCCcCCCcccccccccccceecccccceec
Q 011807 414 LGLTGDGHGDENVNGGANAGVNVRNALTYTAGLDFHPF 451 (477)
Q Consensus 414 lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 451 (477)
||+++. +| |+-++-+.|++++|++|+-+
T Consensus 84 ~G~G~~--------AG--v~y~itpnltLd~GyrYn~~ 111 (132)
T PF02462_consen 84 LGLGAL--------AG--VGYDITPNLTLDAGYRYNYW 111 (132)
T ss_dssp EEEEEE--------EE--EEEEEETTEEEEEEEEEEEE
T ss_pred cceeeE--------EE--EeEecCCCeEEecceEEeec
Confidence 777754 36 78889999999999999877
No 142
>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=22.11 E-value=37 Score=30.28 Aligned_cols=10 Identities=40% Similarity=0.730 Sum_probs=4.4
Q ss_pred hhhhhhcccc
Q 011807 146 KKHFCRKHGE 155 (477)
Q Consensus 146 ~~H~r~Htge 155 (477)
++|++.|+|-
T Consensus 86 krHL~~~~gl 95 (132)
T PF05443_consen 86 KRHLRTHHGL 95 (132)
T ss_dssp HHHHHHTT-S
T ss_pred HHHHHHccCC
Confidence 4555555443
No 143
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=21.98 E-value=65 Score=31.92 Aligned_cols=84 Identities=17% Similarity=0.409 Sum_probs=47.8
Q ss_pred ccccccccccccccccCChhHhhhhhcc---cCCcceecC-CCCcccChhHHHHHHHHhhhhhcChHHHHHHHHHhccC-
Q 011807 152 KHGERKWKCEKCSKVYAVQSDWKAHSKT---CGTREYRCD-CGTLFSRKDSFITHRAFCDALAEESARLSANQLATTIN- 226 (477)
Q Consensus 152 Htgekpf~C~~C~K~F~~~s~L~~H~r~---~gekpy~C~-Cgk~F~~~~~L~~H~~~C~k~f~~~~~L~~H~~~h~~~- 226 (477)
.+|.|-|+|.+|....- ..+--.|+.. .....|+|. |.+. ...+-|+ |-.+|-. .|.|.....
T Consensus 137 ~hGGrif~CsfC~~flC-EDDQFEHQAsCQvLe~E~~KC~SCNrl-Gq~sCLR-----CK~cfCd-----dHvrrKg~ky 204 (314)
T PF06524_consen 137 DHGGRIFKCSFCDNFLC-EDDQFEHQASCQVLESETFKCQSCNRL-GQYSCLR-----CKICFCD-----DHVRRKGFKY 204 (314)
T ss_pred cCCCeEEEeecCCCeee-ccchhhhhhhhhhhhcccccccccccc-cchhhhh-----eeeeehh-----hhhhhccccc
Confidence 45778899999976443 3344456655 345678998 8764 2333343 3333322 344332211
Q ss_pred CCCCcccCCCCCCCCCCCCCC
Q 011807 227 TNGHPLHIASQNHSSSSLFPF 247 (477)
Q Consensus 227 ~~~k~~~C~~C~~~fss~~~~ 247 (477)
...+++.|+.|+..-+....+
T Consensus 205 ~k~k~~PCPKCg~et~eTkdL 225 (314)
T PF06524_consen 205 EKGKPIPCPKCGYETQETKDL 225 (314)
T ss_pred ccCCCCCCCCCCCcccccccc
Confidence 234789999999874444333
No 144
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=21.79 E-value=6.9e+02 Score=25.65 Aligned_cols=25 Identities=12% Similarity=0.262 Sum_probs=20.4
Q ss_pred cCCcceecC----CCCcccChhHHHHHHH
Q 011807 180 CGTREYRCD----CGTLFSRKDSFITHRA 204 (477)
Q Consensus 180 ~gekpy~C~----Cgk~F~~~~~L~~H~~ 204 (477)
.-+--|.|. |.++|....+|..|+.
T Consensus 140 ~~g~iFmC~~~~GC~RTyLsqrDlqAHIn 168 (389)
T KOG2932|consen 140 MMGGIFMCAAPHGCLRTYLSQRDLQAHIN 168 (389)
T ss_pred cccceEEeecchhHHHHHhhHHHHHHHhh
Confidence 445679994 9999999999999886
No 145
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=21.72 E-value=19 Score=40.32 Aligned_cols=23 Identities=35% Similarity=0.653 Sum_probs=19.1
Q ss_pred ccccccccccCChhHhhhhhccc
Q 011807 158 WKCEKCSKVYAVQSDWKAHSKTC 180 (477)
Q Consensus 158 f~C~~C~K~F~~~s~L~~H~r~~ 180 (477)
|.|.+|+|.|.....+..||++|
T Consensus 793 FpCreC~kvF~KiKSrNAHMK~H 815 (907)
T KOG4167|consen 793 FPCRECGKVFFKIKSRNAHMKTH 815 (907)
T ss_pred eehHHHHHHHHHHhhhhHHHHHH
Confidence 88999999888888888888775
No 146
>PF15269 zf-C2H2_7: Zinc-finger
Probab=20.60 E-value=68 Score=23.09 Aligned_cols=21 Identities=24% Similarity=0.641 Sum_probs=15.9
Q ss_pred eecC-CCCcccChhHHHHHHHH
Q 011807 185 YRCD-CGTLFSRKDSFITHRAF 205 (477)
Q Consensus 185 y~C~-Cgk~F~~~~~L~~H~~~ 205 (477)
|+|- |......++.|-.|++.
T Consensus 21 ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred ceeecCCcccchHHHHHHHHHH
Confidence 5676 77777778888888874
No 147
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=20.21 E-value=38 Score=30.78 Aligned_cols=55 Identities=15% Similarity=0.245 Sum_probs=29.5
Q ss_pred cccccccccccCChhHhhhh--hcc--cCCcceecCCCCcccChhHHHHHHHHhhhhhcChHHHHH
Q 011807 157 KWKCEKCSKVYAVQSDWKAH--SKT--CGTREYRCDCGTLFSRKDSFITHRAFCDALAEESARLSA 218 (477)
Q Consensus 157 pf~C~~C~K~F~~~s~L~~H--~r~--~gekpy~C~Cgk~F~~~~~L~~H~~~C~k~f~~~~~L~~ 218 (477)
--.|..|++.|++......- +-+ .|.+ .-|....-+.-=.+.|.|.-.....+..
T Consensus 28 RReC~~C~~RFTTfE~~El~~~~VvKkdg~R-------e~F~r~Kl~~gl~~A~~KRpVs~e~ie~ 86 (156)
T COG1327 28 RRECLECGERFTTFERAELRPLIVVKKDGRR-------EPFDREKLRRGLIRACEKRPVSSEQIEE 86 (156)
T ss_pred hhcccccccccchhheeeeccceEECcCCCc-------CCCCHHHHHHHHHHHHhcCCCCHHHHHH
Confidence 45799999999887543222 111 2221 2344444444444457777666655543
Done!