Query 038715
Match_columns 332
No_of_seqs 374 out of 2606
Neff 8.9
Searched_HMMs 46136
Date Fri Mar 29 02:37:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038715.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038715hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462 C2H2-type Zn-finger pr 99.9 1.5E-26 3.3E-31 198.8 1.6 132 43-225 127-265 (279)
2 KOG2462 C2H2-type Zn-finger pr 99.9 3.4E-26 7.4E-31 196.7 3.1 115 34-191 146-265 (279)
3 KOG3623 Homeobox transcription 99.8 9.9E-22 2.2E-26 186.9 -0.6 75 140-223 892-970 (1007)
4 KOG3608 Zn finger proteins [Ge 99.8 6.1E-21 1.3E-25 168.3 1.3 208 6-228 135-377 (467)
5 KOG1074 Transcriptional repres 99.8 1.9E-19 4.1E-24 174.2 4.0 48 172-228 882-932 (958)
6 KOG1074 Transcriptional repres 99.8 6.4E-20 1.4E-24 177.4 -0.6 78 141-227 604-692 (958)
7 KOG3608 Zn finger proteins [Ge 99.7 4.6E-18 1E-22 150.2 -0.7 165 10-191 184-374 (467)
8 KOG3576 Ovo and related transc 99.6 4.4E-16 9.6E-21 128.0 3.0 102 3-124 115-229 (267)
9 KOG3576 Ovo and related transc 99.5 1.2E-15 2.6E-20 125.5 0.1 109 79-230 115-239 (267)
10 KOG3623 Homeobox transcription 99.4 6.5E-14 1.4E-18 134.2 1.9 80 3-102 892-971 (1007)
11 PLN03086 PRLI-interacting fact 99.1 4.9E-11 1.1E-15 115.2 6.4 60 159-228 494-565 (567)
12 PLN03086 PRLI-interacting fact 98.9 1.8E-09 3.9E-14 104.4 6.5 53 60-117 460-514 (567)
13 PHA00733 hypothetical protein 98.9 4.3E-10 9.3E-15 89.2 1.0 56 165-229 69-125 (128)
14 PHA00733 hypothetical protein 98.7 8E-09 1.7E-13 82.0 3.5 51 44-103 71-121 (128)
15 KOG3993 Transcription factor ( 98.5 6.3E-08 1.4E-12 88.5 4.0 195 6-229 268-484 (500)
16 PHA02768 hypothetical protein; 98.4 6.9E-08 1.5E-12 63.6 1.3 35 60-96 12-46 (55)
17 PHA02768 hypothetical protein; 98.4 1.7E-07 3.7E-12 61.8 2.4 47 2-70 2-48 (55)
18 PF13465 zf-H2C2_2: Zinc-finge 98.3 2E-07 4.3E-12 52.3 0.6 25 68-92 1-25 (26)
19 PHA00616 hypothetical protein 97.9 3.9E-06 8.5E-11 52.6 1.2 34 5-51 1-34 (44)
20 PHA00616 hypothetical protein 97.9 9.1E-06 2E-10 51.0 2.0 32 81-112 1-33 (44)
21 KOG3993 Transcription factor ( 97.8 2.5E-06 5.3E-11 78.3 -1.3 110 44-165 265-380 (500)
22 PHA00732 hypothetical protein 97.8 6.2E-06 1.3E-10 59.5 0.7 43 169-223 1-44 (79)
23 PHA00732 hypothetical protein 97.7 2.3E-05 5E-10 56.5 2.8 47 5-77 1-48 (79)
24 PF13465 zf-H2C2_2: Zinc-finge 97.7 2.1E-05 4.5E-10 44.1 1.8 25 20-64 1-25 (26)
25 PF00096 zf-C2H2: Zinc finger, 97.7 2.8E-05 6.1E-10 42.1 1.9 23 6-28 1-23 (23)
26 COG5189 SFP1 Putative transcri 97.5 6.6E-05 1.4E-09 66.6 2.6 71 105-190 346-419 (423)
27 COG5189 SFP1 Putative transcri 97.3 7.7E-05 1.7E-09 66.2 1.2 26 44-74 347-372 (423)
28 PF05605 zf-Di19: Drought indu 97.2 0.00034 7.4E-09 46.7 3.2 22 5-27 2-23 (54)
29 PF13912 zf-C2H2_6: C2H2-type 97.1 0.00026 5.6E-09 39.9 1.7 25 5-29 1-25 (27)
30 PF13894 zf-C2H2_4: C2H2-type 97.1 0.00036 7.7E-09 37.8 2.1 23 6-28 1-23 (24)
31 PF00096 zf-C2H2: Zinc finger, 97.0 0.00024 5.3E-09 38.3 0.9 21 82-102 1-21 (23)
32 PF05605 zf-Di19: Drought indu 97.0 0.00092 2E-08 44.6 3.5 49 46-104 2-53 (54)
33 PF12756 zf-C2H2_2: C2H2 type 96.7 0.00093 2E-08 50.2 2.2 72 144-228 1-75 (100)
34 PF12756 zf-C2H2_2: C2H2 type 96.4 0.0014 3E-08 49.2 1.4 72 7-103 1-72 (100)
35 PF13894 zf-C2H2_4: C2H2-type 96.3 0.0033 7.2E-08 33.8 2.2 23 195-226 1-23 (24)
36 PF09237 GAGA: GAGA factor; I 96.2 0.0033 7.2E-08 40.4 1.8 33 76-108 19-52 (54)
37 smart00355 ZnF_C2H2 zinc finge 96.2 0.0033 7.2E-08 34.4 1.7 24 6-29 1-24 (26)
38 COG5048 FOG: Zn-finger [Genera 95.7 0.0077 1.7E-07 57.3 3.1 148 45-201 288-453 (467)
39 PF13912 zf-C2H2_6: C2H2-type 95.6 0.0072 1.6E-07 33.8 1.5 24 47-77 2-25 (27)
40 PF12874 zf-met: Zinc-finger o 95.6 0.0079 1.7E-07 32.9 1.6 23 6-28 1-23 (25)
41 PF09237 GAGA: GAGA factor; I 95.2 0.018 3.9E-07 37.1 2.5 27 3-29 22-48 (54)
42 PF12171 zf-C2H2_jaz: Zinc-fin 94.8 0.0095 2.1E-07 33.4 0.3 22 170-191 2-23 (27)
43 PF12874 zf-met: Zinc-finger o 94.6 0.0058 1.3E-07 33.5 -0.9 19 171-189 2-20 (25)
44 PRK04860 hypothetical protein; 94.5 0.016 3.5E-07 47.7 1.2 35 81-119 119-155 (160)
45 KOG1146 Homeobox protein [Gene 94.5 0.026 5.6E-07 59.6 2.8 33 169-201 589-625 (1406)
46 PRK04860 hypothetical protein; 93.9 0.017 3.6E-07 47.6 0.1 29 169-201 119-150 (160)
47 PF12171 zf-C2H2_jaz: Zinc-fin 93.9 0.021 4.6E-07 31.9 0.5 23 5-27 1-23 (27)
48 PF13909 zf-H2C2_5: C2H2-type 93.7 0.054 1.2E-06 29.3 1.9 22 6-28 1-22 (24)
49 smart00355 ZnF_C2H2 zinc finge 93.5 0.086 1.9E-06 28.4 2.6 22 195-225 1-22 (26)
50 PF13909 zf-H2C2_5: C2H2-type 92.7 0.063 1.4E-06 29.0 1.2 21 82-103 1-21 (24)
51 COG5236 Uncharacterized conser 92.1 0.087 1.9E-06 47.8 2.0 30 82-113 152-185 (493)
52 PF13913 zf-C2HC_2: zinc-finge 90.7 0.21 4.5E-06 27.4 1.8 21 6-27 3-23 (25)
53 smart00451 ZnF_U1 U1-like zinc 90.3 0.22 4.7E-06 29.5 1.9 25 4-28 2-26 (35)
54 COG5048 FOG: Zn-finger [Genera 90.1 0.14 3E-06 48.6 1.3 133 80-228 288-443 (467)
55 KOG2231 Predicted E3 ubiquitin 89.7 0.29 6.4E-06 48.9 3.2 107 84-201 118-245 (669)
56 cd00350 rubredoxin_like Rubred 88.2 0.39 8.6E-06 28.2 1.9 23 170-201 2-24 (33)
57 KOG2231 Predicted E3 ubiquitin 87.1 0.61 1.3E-05 46.8 3.6 83 6-103 100-204 (669)
58 KOG2893 Zn finger protein [Gen 86.3 0.13 2.8E-06 44.4 -1.4 29 172-201 13-41 (341)
59 smart00451 ZnF_U1 U1-like zinc 85.1 0.75 1.6E-05 27.0 2.0 23 193-224 2-24 (35)
60 KOG4173 Alpha-SNAP protein [In 84.9 0.23 4.9E-06 41.9 -0.5 74 44-125 77-164 (253)
61 COG4049 Uncharacterized protei 84.9 0.5 1.1E-05 31.1 1.1 27 2-28 14-40 (65)
62 KOG1146 Homeobox protein [Gene 84.2 0.54 1.2E-05 50.2 1.7 54 163-225 459-540 (1406)
63 PF09986 DUF2225: Uncharacteri 81.0 0.79 1.7E-05 39.8 1.3 37 167-203 3-57 (214)
64 cd00729 rubredoxin_SM Rubredox 80.8 1.3 2.9E-05 26.2 1.8 24 169-201 2-25 (34)
65 TIGR00622 ssl1 transcription f 80.1 3.1 6.8E-05 31.9 4.1 21 79-99 13-33 (112)
66 PF13719 zinc_ribbon_5: zinc-r 77.5 1.5 3.3E-05 26.5 1.4 33 144-180 4-36 (37)
67 KOG2893 Zn finger protein [Gen 77.2 0.87 1.9E-05 39.4 0.3 46 48-104 12-58 (341)
68 KOG2785 C2H2-type Zn-finger pr 76.9 0.97 2.1E-05 41.9 0.6 136 47-190 4-241 (390)
69 PF13717 zinc_ribbon_4: zinc-r 76.8 1.7 3.7E-05 26.1 1.5 32 144-179 4-35 (36)
70 PF09723 Zn-ribbon_8: Zinc rib 76.7 1.7 3.7E-05 27.0 1.5 28 170-201 6-33 (42)
71 COG5236 Uncharacterized conser 75.8 1.7 3.7E-05 39.7 1.8 91 5-112 151-251 (493)
72 smart00834 CxxC_CXXC_SSSS Puta 75.7 2 4.3E-05 26.2 1.6 28 170-201 6-33 (41)
73 KOG2482 Predicted C2H2-type Zn 75.7 2.5 5.3E-05 38.7 2.8 24 5-28 195-218 (423)
74 TIGR02605 CxxC_CxxC_SSSS putat 75.0 2 4.4E-05 27.9 1.6 29 169-201 5-33 (52)
75 TIGR02098 MJ0042_CXXC MJ0042 f 73.7 2 4.4E-05 25.9 1.3 12 169-180 25-36 (38)
76 PRK00464 nrdR transcriptional 73.4 1.8 3.9E-05 35.4 1.2 19 169-187 28-46 (154)
77 KOG4173 Alpha-SNAP protein [In 70.6 2.1 4.4E-05 36.3 1.0 78 4-104 78-170 (253)
78 smart00531 TFIIE Transcription 68.1 2.3 4.9E-05 34.6 0.8 32 168-201 98-130 (147)
79 PF10571 UPF0547: Uncharacteri 68.0 3.5 7.6E-05 22.8 1.3 10 171-180 16-25 (26)
80 PRK00398 rpoP DNA-directed RNA 67.8 4.2 9.1E-05 25.7 1.8 11 170-180 4-14 (46)
81 KOG4124 Putative transcription 67.7 4 8.7E-05 37.5 2.3 56 167-222 347-426 (442)
82 COG4049 Uncharacterized protei 66.4 3.5 7.6E-05 27.2 1.2 28 76-103 12-39 (65)
83 smart00659 RPOLCX RNA polymera 65.8 5.1 0.00011 25.3 1.9 24 170-201 3-26 (44)
84 cd00730 rubredoxin Rubredoxin; 65.3 6.3 0.00014 25.6 2.3 32 170-201 2-41 (50)
85 KOG2186 Cell growth-regulating 65.2 2.3 4.9E-05 37.3 0.2 47 143-191 4-50 (276)
86 PF00301 Rubredoxin: Rubredoxi 64.5 6.9 0.00015 25.1 2.3 32 170-201 2-41 (47)
87 PHA00626 hypothetical protein 64.3 5.4 0.00012 26.4 1.8 12 169-180 23-34 (59)
88 TIGR00622 ssl1 transcription f 63.9 18 0.0004 27.8 4.9 19 106-124 13-32 (112)
89 COG2888 Predicted Zn-ribbon RN 63.6 3.9 8.4E-05 27.4 1.0 31 169-201 27-57 (61)
90 TIGR00373 conserved hypothetic 62.5 3 6.4E-05 34.4 0.4 31 165-201 105-135 (158)
91 PRK06266 transcription initiat 62.0 3.2 6.9E-05 34.9 0.5 29 167-201 115-143 (178)
92 COG1997 RPL43A Ribosomal prote 61.3 6.2 0.00013 28.7 1.8 13 169-181 53-65 (89)
93 KOG2482 Predicted C2H2-type Zn 61.1 7.1 0.00015 35.8 2.6 24 45-75 194-217 (423)
94 PF03604 DNA_RNApol_7kD: DNA d 60.1 7.3 0.00016 22.7 1.7 11 170-180 1-11 (32)
95 COG3357 Predicted transcriptio 59.5 5.7 0.00012 29.1 1.4 27 168-201 57-83 (97)
96 PF02892 zf-BED: BED zinc fing 59.5 8.9 0.00019 23.9 2.2 24 3-26 14-41 (45)
97 PF14353 CpXC: CpXC protein 58.0 5.6 0.00012 31.3 1.3 23 169-191 38-60 (128)
98 PF09538 FYDLN_acid: Protein o 57.4 6.6 0.00014 30.1 1.6 25 170-202 10-34 (108)
99 COG0068 HypF Hydrogenase matur 56.8 6.9 0.00015 39.6 1.9 55 144-201 125-180 (750)
100 PF09538 FYDLN_acid: Protein o 56.7 6.9 0.00015 30.0 1.5 30 6-66 10-39 (108)
101 COG1592 Rubrerythrin [Energy p 56.1 8.2 0.00018 32.0 2.0 23 169-201 134-156 (166)
102 PRK00464 nrdR transcriptional 56.0 6 0.00013 32.4 1.2 38 170-207 1-41 (154)
103 PF09845 DUF2072: Zn-ribbon co 55.2 5.8 0.00013 31.3 0.9 25 169-201 1-26 (131)
104 COG1996 RPC10 DNA-directed RNA 54.5 8.1 0.00018 25.0 1.3 26 169-201 6-31 (49)
105 COG1773 Rubredoxin [Energy pro 53.5 15 0.00032 24.4 2.4 33 169-201 3-43 (55)
106 KOG2186 Cell growth-regulating 52.4 13 0.00028 32.7 2.7 39 82-121 4-43 (276)
107 PF14353 CpXC: CpXC protein 52.1 7.1 0.00015 30.7 1.0 32 170-201 2-45 (128)
108 PRK14890 putative Zn-ribbon RN 51.2 9.2 0.0002 25.7 1.2 31 169-201 25-55 (59)
109 PRK09678 DNA-binding transcrip 50.7 6.4 0.00014 27.7 0.5 21 165-185 23-45 (72)
110 smart00614 ZnF_BED BED zinc fi 49.4 13 0.00028 23.9 1.7 24 5-28 18-47 (50)
111 PF09986 DUF2225: Uncharacteri 48.2 6.9 0.00015 34.0 0.4 22 45-73 4-25 (214)
112 PF14446 Prok-RING_1: Prokaryo 45.8 11 0.00024 24.8 1.0 23 170-201 6-28 (54)
113 COG1592 Rubrerythrin [Energy p 45.1 14 0.0003 30.6 1.7 25 45-89 133-157 (166)
114 PF06524 NOA36: NOA36 protein; 45.0 21 0.00045 31.6 2.8 10 192-201 207-216 (314)
115 COG2331 Uncharacterized protei 44.8 19 0.00041 25.5 2.0 29 169-201 12-40 (82)
116 PRK09678 DNA-binding transcrip 44.8 10 0.00022 26.8 0.7 32 170-201 2-36 (72)
117 COG5151 SSL1 RNA polymerase II 44.6 50 0.0011 30.1 5.1 20 169-188 388-407 (421)
118 PRK03824 hypA hydrogenase nick 43.7 17 0.00038 28.9 2.0 18 165-182 66-83 (135)
119 TIGR00373 conserved hypothetic 42.1 26 0.00056 28.8 2.9 34 43-92 106-139 (158)
120 KOG4167 Predicted DNA-binding 39.9 8.2 0.00018 39.0 -0.5 27 3-29 790-816 (907)
121 PF02176 zf-TRAF: TRAF-type zi 39.0 9 0.0002 25.4 -0.2 33 168-201 8-49 (60)
122 COG1198 PriA Primosomal protei 38.8 30 0.00065 35.7 3.3 28 162-201 455-482 (730)
123 PF04959 ARS2: Arsenite-resist 38.2 24 0.00052 30.6 2.2 28 2-29 74-101 (214)
124 smart00734 ZnF_Rad18 Rad18-lik 38.0 31 0.00067 18.9 1.9 20 195-224 2-21 (26)
125 PF15269 zf-C2H2_7: Zinc-finge 37.9 22 0.00048 22.3 1.4 23 6-28 21-43 (54)
126 KOG2593 Transcription initiati 37.8 12 0.00026 35.5 0.3 38 164-201 123-160 (436)
127 TIGR02300 FYDLN_acid conserved 36.4 23 0.0005 27.8 1.6 31 5-66 9-39 (129)
128 PTZ00255 60S ribosomal protein 36.0 20 0.00043 26.4 1.2 14 169-182 54-67 (90)
129 PRK06266 transcription initiat 35.8 21 0.00046 30.0 1.4 32 44-91 115-146 (178)
130 PF01286 XPA_N: XPA protein N- 34.8 27 0.00058 20.7 1.3 15 171-185 5-19 (34)
131 PF04959 ARS2: Arsenite-resist 34.3 18 0.0004 31.3 0.9 29 78-106 74-103 (214)
132 PF07754 DUF1610: Domain of un 34.2 20 0.00043 19.4 0.7 10 4-13 15-24 (24)
133 KOG4124 Putative transcription 33.5 23 0.00049 32.8 1.3 32 160-191 389-420 (442)
134 TIGR01206 lysW lysine biosynth 33.0 37 0.0008 22.4 1.9 11 169-179 22-32 (54)
135 PF08790 zf-LYAR: LYAR-type C2 33.0 22 0.00047 20.1 0.7 19 170-189 1-19 (28)
136 PRK12496 hypothetical protein; 32.8 31 0.00067 28.5 1.9 24 169-201 127-150 (164)
137 PRK14873 primosome assembly pr 31.1 38 0.00082 34.7 2.6 29 161-202 402-430 (665)
138 TIGR00280 L37a ribosomal prote 30.8 25 0.00053 26.0 0.9 14 169-182 53-66 (91)
139 PF15506 OCC1: OCC1 family 30.4 26 0.00057 22.9 0.9 14 315-328 33-46 (62)
140 PF13878 zf-C2H2_3: zinc-finge 30.3 42 0.00091 20.7 1.8 24 6-29 14-39 (41)
141 PF04216 FdhE: Protein involve 30.3 11 0.00025 34.2 -1.2 15 167-181 236-250 (290)
142 PRK12380 hydrogenase nickel in 29.3 36 0.00077 26.2 1.6 26 167-201 68-93 (113)
143 smart00154 ZnF_AN1 AN1-like Zi 29.2 28 0.0006 21.2 0.8 15 169-183 12-26 (39)
144 PF07975 C1_4: TFIIH C1-like d 29.1 17 0.00037 23.7 -0.1 26 4-29 20-45 (51)
145 PF05290 Baculo_IE-1: Baculovi 28.8 54 0.0012 26.0 2.5 18 2-19 77-94 (140)
146 COG1198 PriA Primosomal protei 28.4 35 0.00077 35.2 1.9 15 164-178 470-484 (730)
147 PF01780 Ribosomal_L37ae: Ribo 28.3 21 0.00046 26.3 0.2 14 169-182 53-66 (90)
148 TIGR00100 hypA hydrogenase nic 27.5 40 0.00087 26.0 1.6 30 163-201 64-93 (115)
149 PF12013 DUF3505: Protein of u 27.3 32 0.00069 26.1 1.1 24 82-105 81-109 (109)
150 TIGR00244 transcriptional regu 26.5 36 0.00077 27.6 1.2 19 168-186 27-45 (147)
151 PRK03976 rpl37ae 50S ribosomal 26.3 32 0.00069 25.4 0.8 13 169-181 54-66 (90)
152 PRK03681 hypA hydrogenase nick 25.7 54 0.0012 25.3 2.1 29 165-201 66-94 (114)
153 TIGR00595 priA primosomal prot 25.6 60 0.0013 32.1 2.9 30 160-201 231-260 (505)
154 PF05191 ADK_lid: Adenylate ki 25.2 54 0.0012 19.6 1.6 10 171-180 3-12 (36)
155 KOG4167 Predicted DNA-binding 25.2 26 0.00056 35.6 0.3 24 81-104 792-815 (907)
156 KOG0696 Serine/threonine prote 25.1 49 0.0011 31.8 2.0 58 3-89 71-129 (683)
157 KOG2593 Transcription initiati 24.5 73 0.0016 30.5 3.1 39 77-118 124-164 (436)
158 COG3364 Zn-ribbon containing p 24.3 30 0.00066 26.0 0.4 26 169-201 2-27 (112)
159 PF01428 zf-AN1: AN1-like Zinc 24.3 31 0.00067 21.4 0.4 16 168-183 12-27 (43)
160 PF12760 Zn_Tnp_IS1595: Transp 24.0 42 0.00092 21.1 1.0 8 169-176 37-44 (46)
161 PF04606 Ogr_Delta: Ogr/Delta- 23.9 22 0.00048 22.6 -0.3 12 170-181 26-39 (47)
162 TIGR00143 hypF [NiFe] hydrogen 23.8 49 0.0011 34.3 1.9 31 168-201 116-147 (711)
163 PF03470 zf-XS: XS zinc finger 23.8 89 0.0019 19.6 2.3 17 212-229 11-27 (43)
164 PF05443 ROS_MUCR: ROS/MUCR tr 23.7 58 0.0013 25.9 1.9 23 4-29 71-93 (132)
165 PF10263 SprT-like: SprT-like 23.2 43 0.00094 27.0 1.2 27 169-201 123-150 (157)
166 smart00440 ZnF_C2C2 C2C2 Zinc 23.0 32 0.0007 21.0 0.3 10 170-179 29-38 (40)
167 PRK00564 hypA hydrogenase nick 22.8 51 0.0011 25.5 1.5 28 165-201 67-95 (117)
168 COG1327 Predicted transcriptio 21.5 51 0.0011 26.8 1.2 17 168-184 27-43 (156)
169 PF15135 UPF0515: Uncharacteri 21.4 88 0.0019 27.6 2.7 60 43-121 109-169 (278)
170 PF14690 zf-ISL3: zinc-finger 20.6 40 0.00086 21.0 0.4 7 143-149 3-9 (47)
171 PF13451 zf-trcl: Probable zin 20.6 47 0.001 21.5 0.7 18 3-20 2-19 (49)
172 PRK04351 hypothetical protein; 20.4 62 0.0014 26.3 1.6 27 169-201 112-139 (149)
173 PF14311 DUF4379: Domain of un 20.2 68 0.0015 20.9 1.5 28 169-200 28-55 (55)
No 1
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.92 E-value=1.5e-26 Score=198.78 Aligned_cols=132 Identities=20% Similarity=0.370 Sum_probs=105.1
Q ss_pred CCcceecCCCCCCCCCCCCccCChhhHhhhhccccC---CCccccccChhhhcCchhhHHHHHHhCCCCeeee-cCCccc
Q 038715 43 KKGVYVCPKPNCVHHHPSRALGDLTGVKKHFCRKHG---EKKWKCDKCSKCYAVQSDWKAHTKICGTREHRCD-CGIIFS 118 (332)
Q Consensus 43 ~~~~~~C~~C~C~~~~~~~~f~~~~~L~~H~~~h~~---ek~~~C~~C~~~f~~~~~L~~H~~~h~~k~~~C~-C~k~f~ 118 (332)
....|+|+.| ++.+.+.++|.+|+++|.. .+.+.|.+|++.|.+...|+.|+++|. -+.+|. |||.|+
T Consensus 127 ~~~r~~c~eC-------gk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~-l~c~C~iCGKaFS 198 (279)
T KOG2462|consen 127 KHPRYKCPEC-------GKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT-LPCECGICGKAFS 198 (279)
T ss_pred cCCceecccc-------ccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC-CCccccccccccc
Confidence 4456778887 8888888888888877753 456888888888888888888888853 678887 888888
Q ss_pred cchhHhhcCCccchhhhhccCCCCccCCCCcccccCCCCcccccccCCCCceecccccccccCcccccccccC---CCCc
Q 038715 119 SQNLAASGGMAQSQAQELFSSSMPSTDSDSNTNIRMNPSISRDNIENSLRPLSMSSVGVMVSSNLDPILTSRV---SKPY 195 (332)
Q Consensus 119 ~~~~l~~h~~~~~~~~~~~~~~~~~~c~~c~~~f~~~~~~~h~~~h~~~k~~~C~~C~k~F~~~~~L~~H~~~---~~p~ 195 (332)
+..+|+. |.|+|+|||||.|+.|+|+|..+++|+.||++ .|+|
T Consensus 199 RPWLLQG----------------------------------HiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~ 244 (279)
T KOG2462|consen 199 RPWLLQG----------------------------------HIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKH 244 (279)
T ss_pred chHHhhc----------------------------------ccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccc
Confidence 8888873 88888888888888888888888888888888 7788
Q ss_pred cCCCCCCCcccccccccccChhHHHHHHHH
Q 038715 196 LSSVCGSNACAMAIGSSFTSSTALLQKAAE 225 (332)
Q Consensus 196 ~C~~C~~~~~~~~~~~~f~~~~~L~~H~~~ 225 (332)
+|..|+ ++|...+-|.+|...
T Consensus 245 qC~~C~---------KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 245 QCPRCG---------KSFALKSYLNKHSES 265 (279)
T ss_pred cCcchh---------hHHHHHHHHHHhhhh
Confidence 888888 888888888888653
No 2
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.92 E-value=3.4e-26 Score=196.65 Aligned_cols=115 Identities=15% Similarity=0.269 Sum_probs=101.4
Q ss_pred cccCcccc---CCCcceecCCCCCCCCCCCCccCChhhHhhhhccccCCCccccccChhhhcCchhhHHHHHH-hCCCCe
Q 038715 34 LMQRPTTQ---VKKGVYVCPKPNCVHHHPSRALGDLTGVKKHFCRKHGEKKWKCDKCSKCYAVQSDWKAHTKI-CGTREH 109 (332)
Q Consensus 34 l~~~~~~~---~~~~~~~C~~C~C~~~~~~~~f~~~~~L~~H~~~h~~ek~~~C~~C~~~f~~~~~L~~H~~~-h~~k~~ 109 (332)
|..|+..| ...+.+.|+.| ++.|.....|+.|+++|+ -+++|.+|||.|.+...|+-|+|+ +|||||
T Consensus 146 LsrHkQ~H~~~~s~ka~~C~~C-------~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF 216 (279)
T KOG2462|consen 146 LSRHKQTHRSLDSKKAFSCKYC-------GKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLLQGHIRTHTGEKPF 216 (279)
T ss_pred cchhhcccccccccccccCCCC-------CceeeehHHHhhHhhccC--CCcccccccccccchHHhhcccccccCCCCc
Confidence 44555554 23677899999 999999999999999998 579999999999999999999999 699999
Q ss_pred eee-cCCccccchhHhhcCCccchhhhhccCCCCccCCCCcccccCCCCcccccccCCCCceecccccccccCccccccc
Q 038715 110 RCD-CGIIFSSQNLAASGGMAQSQAQELFSSSMPSTDSDSNTNIRMNPSISRDNIENSLRPLSMSSVGVMVSSNLDPILT 188 (332)
Q Consensus 110 ~C~-C~k~f~~~~~l~~h~~~~~~~~~~~~~~~~~~c~~c~~~f~~~~~~~h~~~h~~~k~~~C~~C~k~F~~~~~L~~H 188 (332)
.|. |++.|+.+++|+. |+.+|.+.|+|+|..|+|+|..++.|.+|
T Consensus 217 ~C~hC~kAFADRSNLRA----------------------------------HmQTHS~~K~~qC~~C~KsFsl~SyLnKH 262 (279)
T KOG2462|consen 217 SCPHCGKAFADRSNLRA----------------------------------HMQTHSDVKKHQCPRCGKSFALKSYLNKH 262 (279)
T ss_pred cCCcccchhcchHHHHH----------------------------------HHHhhcCCccccCcchhhHHHHHHHHHHh
Confidence 998 9999999999985 88899999999999999999999999999
Q ss_pred ccC
Q 038715 189 SRV 191 (332)
Q Consensus 189 ~~~ 191 (332)
...
T Consensus 263 ~ES 265 (279)
T KOG2462|consen 263 SES 265 (279)
T ss_pred hhh
Confidence 876
No 3
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.82 E-value=9.9e-22 Score=186.89 Aligned_cols=75 Identities=12% Similarity=0.119 Sum_probs=68.0
Q ss_pred CCCccCCCCccccc-CCCCcccccccCCCCceecccccccccCcccccccccC---CCCccCCCCCCCcccccccccccC
Q 038715 140 SMPSTDSDSNTNIR-MNPSISRDNIENSLRPLSMSSVGVMVSSNLDPILTSRV---SKPYLSSVCGSNACAMAIGSSFTS 215 (332)
Q Consensus 140 ~~~~~c~~c~~~f~-~~~~~~h~~~h~~~k~~~C~~C~k~F~~~~~L~~H~~~---~~p~~C~~C~~~~~~~~~~~~f~~ 215 (332)
+-+|.|+.|+|.|. .+++.+|.--|+|.|||+|.+|.|+|..+..|..|+|. +|||+|+.|+ +.|..
T Consensus 892 ~gmyaCDqCDK~FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQCdKCl---------KRFSH 962 (1007)
T KOG3623|consen 892 DGMYACDQCDKAFQKQSSLARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQCDKCL---------KRFSH 962 (1007)
T ss_pred cccchHHHHHHHHHhhHHHHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhhhccCCCcchhhhhh---------hhccc
Confidence 34699999999997 66668899999999999999999999999999999999 9999999999 77777
Q ss_pred hhHHHHHH
Q 038715 216 STALLQKA 223 (332)
Q Consensus 216 ~~~L~~H~ 223 (332)
..+.-+|+
T Consensus 963 SGSYSQHM 970 (1007)
T KOG3623|consen 963 SGSYSQHM 970 (1007)
T ss_pred ccchHhhh
Confidence 77777885
No 4
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.80 E-value=6.1e-21 Score=168.28 Aligned_cols=208 Identities=17% Similarity=0.243 Sum_probs=142.8
Q ss_pred eec--ccccccccChhHHHHHHHhcCCCcccccCccccCCCcceecCCCCCCCCCCCCccCChhhHhhhhccccCCCccc
Q 038715 6 YIC--EVCHKGFQRDQNLQLHRKGHNLPWKLMQRPTTQVKKGVYVCPKPNCVHHHPSRALGDLTGVKKHFCRKHGEKKWK 83 (332)
Q Consensus 6 ~~C--~~C~k~f~~~~~L~~H~~~h~~~~~l~~~~~~~~~~~~~~C~~C~C~~~~~~~~f~~~~~L~~H~~~h~~ek~~~ 83 (332)
|.| +.|++.|.+...|..|+..|..-.............-.+.|.|-+| .+.+.++..|.+|.+.|++||...
T Consensus 135 f~C~WedCe~~F~s~~ef~dHV~~H~l~ceyd~~~~~~D~~pv~~C~W~~C-----t~~~~~k~~LreH~r~Hs~eKvvA 209 (467)
T KOG3608|consen 135 FRCGWEDCEREFVSIVEFQDHVVKHALFCEYDIQKTPEDERPVTMCNWAMC-----TKHMGNKYRLREHIRTHSNEKVVA 209 (467)
T ss_pred hccChhhcCCcccCHHHHHHHHHHhhhhhhhhhhhCCCCCCceeeccchhh-----hhhhccHHHHHHHHHhcCCCeEEe
Confidence 556 5899999999999999988862111111111111223456776555 677777777777777777777777
Q ss_pred cccChhhhcCchhhHHHHHH-h--CCCCeeee-cCCccccchhHhhcCCcc--------------------chhhhhccC
Q 038715 84 CDKCSKCYAVQSDWKAHTKI-C--GTREHRCD-CGIIFSSQNLAASGGMAQ--------------------SQAQELFSS 139 (332)
Q Consensus 84 C~~C~~~f~~~~~L~~H~~~-h--~~k~~~C~-C~k~f~~~~~l~~h~~~~--------------------~~~~~~~~~ 139 (332)
|+.|+..|+++..|..|.++ + ...+|.|. |.|.|.+..+|..|.+.| ....-.|+.
T Consensus 210 Cp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~ykCplCdmtc~~~ssL~~H~r~rHs~ 289 (467)
T KOG3608|consen 210 CPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNCYKCPLCDMTCSSASSLTTHIRYRHSK 289 (467)
T ss_pred cchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhcccccccccCCCChHHHHHHHHhhhcc
Confidence 77777777777777777776 3 45677776 777777766666554322 112234667
Q ss_pred CCCccCCCCcccccCC-CCcccccccCCCCceeccc--ccccccCcccccccccC------CCCccCCCCCCCccccccc
Q 038715 140 SMPSTDSDSNTNIRMN-PSISRDNIENSLRPLSMSS--VGVMVSSNLDPILTSRV------SKPYLSSVCGSNACAMAIG 210 (332)
Q Consensus 140 ~~~~~c~~c~~~f~~~-~~~~h~~~h~~~k~~~C~~--C~k~F~~~~~L~~H~~~------~~p~~C~~C~~~~~~~~~~ 210 (332)
++||+|+.|++.+... .+.+|..+|+ +-.|+|.. |..+|++..+|++|++- +.+|.|..|+
T Consensus 290 dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cd--------- 359 (467)
T KOG3608|consen 290 DKPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCD--------- 359 (467)
T ss_pred CCCccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecch---------
Confidence 7888888888877633 3356777777 55788866 88888888888888665 6778888888
Q ss_pred ccccChhHHHHHHHHhcc
Q 038715 211 SSFTSSTALLQKAAEMGT 228 (332)
Q Consensus 211 ~~f~~~~~L~~H~~~~~~ 228 (332)
+.|++-.+|..|+.+-+.
T Consensus 360 r~ft~G~~L~~HL~kkH~ 377 (467)
T KOG3608|consen 360 RFFTSGKSLSAHLMKKHG 377 (467)
T ss_pred hhhccchhHHHHHHHhhc
Confidence 888888888888765544
No 5
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.76 E-value=1.9e-19 Score=174.25 Aligned_cols=48 Identities=21% Similarity=0.277 Sum_probs=45.1
Q ss_pred cccccccccCcccccccccC---CCCccCCCCCCCcccccccccccChhHHHHHHHHhcc
Q 038715 172 MSSVGVMVSSNLDPILTSRV---SKPYLSSVCGSNACAMAIGSSFTSSTALLQKAAEMGT 228 (332)
Q Consensus 172 C~~C~k~F~~~~~L~~H~~~---~~p~~C~~C~~~~~~~~~~~~f~~~~~L~~H~~~~~~ 228 (332)
|.+|++.|...+.|..|+|+ +|||.|.+|+ +.|+.+.+|..|+..+.-
T Consensus 882 C~vCgk~FsSSsALqiH~rTHtg~KPF~C~fC~---------~aFttrgnLKvHMgtH~w 932 (958)
T KOG1074|consen 882 CNVCGKQFSSSAALEIHMRTHTGPKPFFCHFCE---------EAFTTRGNLKVHMGTHMW 932 (958)
T ss_pred hccchhcccchHHHHHhhhcCCCCCCccchhhh---------hhhhhhhhhhhhhccccc
Confidence 99999999999999999999 9999999999 999999999999875543
No 6
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.76 E-value=6.4e-20 Score=177.43 Aligned_cols=78 Identities=13% Similarity=0.084 Sum_probs=69.9
Q ss_pred CCccCCCCccccc-CCCCcccccccCCCCceecccccccccCcccccccccC-------CCCccCC---CCCCCcccccc
Q 038715 141 MPSTDSDSNTNIR-MNPSISRDNIENSLRPLSMSSVGVMVSSNLDPILTSRV-------SKPYLSS---VCGSNACAMAI 209 (332)
Q Consensus 141 ~~~~c~~c~~~f~-~~~~~~h~~~h~~~k~~~C~~C~k~F~~~~~L~~H~~~-------~~p~~C~---~C~~~~~~~~~ 209 (332)
-|-.|-+|.+... .+.+..|.|+|+|||||+|.+||++|.++.+|+.||-+ .-+|.|+ +|.
T Consensus 604 dPNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~-------- 675 (958)
T KOG1074|consen 604 DPNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQ-------- 675 (958)
T ss_pred CccceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhc--------
Confidence 3578999999998 66677799999999999999999999999999999888 5679999 999
Q ss_pred cccccChhHHHHHHHHhc
Q 038715 210 GSSFTSSTALLQKAAEMG 227 (332)
Q Consensus 210 ~~~f~~~~~L~~H~~~~~ 227 (332)
+.|.....|.+|+..+.
T Consensus 676 -~kftn~V~lpQhIriH~ 692 (958)
T KOG1074|consen 676 -KKFTNAVTLPQHIRIHL 692 (958)
T ss_pred -ccccccccccceEEeec
Confidence 99999999999987643
No 7
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.67 E-value=4.6e-18 Score=150.23 Aligned_cols=165 Identities=14% Similarity=0.176 Sum_probs=119.5
Q ss_pred cccccccChhHHHHHHHhcCCCccc-----------------ccCccccCCCcceecCCCCCCCCCCCCccCChhhHhhh
Q 038715 10 VCHKGFQRDQNLQLHRKGHNLPWKL-----------------MQRPTTQVKKGVYVCPKPNCVHHHPSRALGDLTGVKKH 72 (332)
Q Consensus 10 ~C~k~f~~~~~L~~H~~~h~~~~~l-----------------~~~~~~~~~~~~~~C~~C~C~~~~~~~~f~~~~~L~~H 72 (332)
.|-+.|.++..|++|++.|++...+ ..+.++.....+|.|..| .+.|.+...|..|
T Consensus 184 ~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C-------~KrFaTeklL~~H 256 (467)
T KOG3608|consen 184 MCTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQC-------FKRFATEKLLKSH 256 (467)
T ss_pred hhhhhhccHHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHH-------HHHHhHHHHHHHH
Confidence 4666666677777777666622110 001111123446667666 6777777777777
Q ss_pred hccccCCCccccccChhhhcCchhhHHHHHH-h-CCCCeeee-cCCccccchhHhhcCCccchhhhhccCCCCccCCC--
Q 038715 73 FCRKHGEKKWKCDKCSKCYAVQSDWKAHTKI-C-GTREHRCD-CGIIFSSQNLAASGGMAQSQAQELFSSSMPSTDSD-- 147 (332)
Q Consensus 73 ~~~h~~ek~~~C~~C~~~f~~~~~L~~H~~~-h-~~k~~~C~-C~k~f~~~~~l~~h~~~~~~~~~~~~~~~~~~c~~-- 147 (332)
+..|.. -|+|+.|+......++|..|++. | .+|||+|+ |++.|.+.+.|.. |..+|+ +..|.|..
T Consensus 257 v~rHvn--~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~k-------H~~~HS-~~~y~C~h~~ 326 (467)
T KOG3608|consen 257 VVRHVN--CYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAK-------HVQVHS-KTVYQCEHPD 326 (467)
T ss_pred HHHhhh--cccccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHH-------HHHhcc-ccceecCCCC
Confidence 766653 48899999988999999999998 7 78999999 9999999999984 666777 77899987
Q ss_pred Cccccc-CCCCcccccccC-C--CCceecccccccccCcccccccccC
Q 038715 148 SNTNIR-MNPSISRDNIEN-S--LRPLSMSSVGVMVSSNLDPILTSRV 191 (332)
Q Consensus 148 c~~~f~-~~~~~~h~~~h~-~--~k~~~C~~C~k~F~~~~~L~~H~~~ 191 (332)
|...++ .....+|.+.+. + +-+|.|..|++.|++..+|.+|++.
T Consensus 327 C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~k 374 (467)
T KOG3608|consen 327 CHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTSGKSLSAHLMK 374 (467)
T ss_pred CcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhhccchhHHHHHHH
Confidence 777776 444456765433 3 4589999999999999999999776
No 8
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.59 E-value=4.4e-16 Score=128.00 Aligned_cols=102 Identities=24% Similarity=0.493 Sum_probs=93.1
Q ss_pred CCceecccccccccChhHHHHHHHhcCCCcccccCccccCCCcceecCCCCCCCCCCCCccCChhhHhhhhccccCCCcc
Q 038715 3 TNRYICEVCHKGFQRDQNLQLHRKGHNLPWKLMQRPTTQVKKGVYVCPKPNCVHHHPSRALGDLTGVKKHFCRKHGEKKW 82 (332)
Q Consensus 3 ~k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~l~~~~~~~~~~~~~~C~~C~C~~~~~~~~f~~~~~L~~H~~~h~~ek~~ 82 (332)
...|.|.+|+|.|..+.-|.+|++.|. ..+.|.|..| |+.|.....|++|+++|+|.+||
T Consensus 115 ~d~ftCrvCgK~F~lQRmlnrh~kch~-------------~vkr~lct~c-------gkgfndtfdlkrh~rthtgvrpy 174 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRMLNRHLKCHS-------------DVKRHLCTFC-------GKGFNDTFDLKRHTRTHTGVRPY 174 (267)
T ss_pred CCeeeeehhhhhhhHHHHHHHHhhhcc-------------HHHHHHHhhc-------cCcccchhhhhhhhccccCcccc
Confidence 457999999999999999999999998 7889999999 99999999999999999999999
Q ss_pred ccccChhhhcCchhhHHHHHH-hC-----------CCCeeee-cCCccccchhHh
Q 038715 83 KCDKCSKCYAVQSDWKAHTKI-CG-----------TREHRCD-CGIIFSSQNLAA 124 (332)
Q Consensus 83 ~C~~C~~~f~~~~~L~~H~~~-h~-----------~k~~~C~-C~k~f~~~~~l~ 124 (332)
+|..|+++|...-+|..|.+. |+ +|.|.|+ ||..-.....+.
T Consensus 175 kc~~c~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~ 229 (267)
T KOG3576|consen 175 KCSLCEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYY 229 (267)
T ss_pred chhhhhHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHH
Confidence 999999999999999999998 85 4678998 998887765555
No 9
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.53 E-value=1.2e-15 Score=125.50 Aligned_cols=109 Identities=17% Similarity=0.276 Sum_probs=86.6
Q ss_pred CCccccccChhhhcCchhhHHHHHHh-CCCCeeee-cCCccccchhHhhcCCccchhhhhccCCCCccCCCCcccccCCC
Q 038715 79 EKKWKCDKCSKCYAVQSDWKAHTKIC-GTREHRCD-CGIIFSSQNLAASGGMAQSQAQELFSSSMPSTDSDSNTNIRMNP 156 (332)
Q Consensus 79 ek~~~C~~C~~~f~~~~~L~~H~~~h-~~k~~~C~-C~k~f~~~~~l~~h~~~~~~~~~~~~~~~~~~c~~c~~~f~~~~ 156 (332)
...|.|.+|++.|.-..-|.+|++-| ..|.|-|. |||.|...-.|+
T Consensus 115 ~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlk-------------------------------- 162 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLK-------------------------------- 162 (267)
T ss_pred CCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhh--------------------------------
Confidence 34577777777777777777777764 44566676 777777666665
Q ss_pred CcccccccCCCCceecccccccccCcccccccccC--------------CCCccCCCCCCCcccccccccccChhHHHHH
Q 038715 157 SISRDNIENSLRPLSMSSVGVMVSSNLDPILTSRV--------------SKPYLSSVCGSNACAMAIGSSFTSSTALLQK 222 (332)
Q Consensus 157 ~~~h~~~h~~~k~~~C~~C~k~F~~~~~L~~H~~~--------------~~p~~C~~C~~~~~~~~~~~~f~~~~~L~~H 222 (332)
+|.|+|+|.|||+|..|+|+|+++-+|..|.+. .+.|.|+.|| ..-.....+..|
T Consensus 163 --rh~rthtgvrpykc~~c~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg---------~t~~~~e~~~~h 231 (267)
T KOG3576|consen 163 --RHTRTHTGVRPYKCSLCEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCG---------YTSERPEVYYLH 231 (267)
T ss_pred --hhhccccCccccchhhhhHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccC---------CCCCChhHHHHH
Confidence 499999999999999999999999999999664 7889999999 777778888889
Q ss_pred HHHhcccc
Q 038715 223 AAEMGTMM 230 (332)
Q Consensus 223 ~~~~~~~~ 230 (332)
++.+++..
T Consensus 232 ~~~~hp~S 239 (267)
T KOG3576|consen 232 LKLHHPFS 239 (267)
T ss_pred HHhcCCCC
Confidence 88877654
No 10
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.40 E-value=6.5e-14 Score=134.18 Aligned_cols=80 Identities=28% Similarity=0.576 Sum_probs=58.3
Q ss_pred CCceecccccccccChhHHHHHHHhcCCCcccccCccccCCCcceecCCCCCCCCCCCCccCChhhHhhhhccccCCCcc
Q 038715 3 TNRYICEVCHKGFQRDQNLQLHRKGHNLPWKLMQRPTTQVKKGVYVCPKPNCVHHHPSRALGDLTGVKKHFCRKHGEKKW 82 (332)
Q Consensus 3 ~k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~l~~~~~~~~~~~~~~C~~C~C~~~~~~~~f~~~~~L~~H~~~h~~ek~~ 82 (332)
+-.|.|+.|+|.|...+.|.+|.-.|+ +++||.|.+| .+.|+.+..|..|+|.|.|||||
T Consensus 892 ~gmyaCDqCDK~FqKqSSLaRHKYEHs-------------GqRPyqC~iC-------kKAFKHKHHLtEHkRLHSGEKPf 951 (1007)
T KOG3623|consen 892 DGMYACDQCDKAFQKQSSLARHKYEHS-------------GQRPYQCIIC-------KKAFKHKHHLTEHKRLHSGEKPF 951 (1007)
T ss_pred cccchHHHHHHHHHhhHHHHHhhhhhc-------------CCCCcccchh-------hHhhhhhhhhhhhhhhccCCCcc
Confidence 345777777777777777777777776 7777777777 77777777777777777777777
Q ss_pred ccccChhhhcCchhhHHHHH
Q 038715 83 KCDKCSKCYAVQSDWKAHTK 102 (332)
Q Consensus 83 ~C~~C~~~f~~~~~L~~H~~ 102 (332)
+|+.|+|+|....+..+||-
T Consensus 952 QCdKClKRFSHSGSYSQHMN 971 (1007)
T KOG3623|consen 952 QCDKCLKRFSHSGSYSQHMN 971 (1007)
T ss_pred hhhhhhhhcccccchHhhhc
Confidence 77777777777777777665
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.15 E-value=4.9e-11 Score=115.16 Aligned_cols=60 Identities=15% Similarity=0.128 Sum_probs=45.7
Q ss_pred ccccccCCCCceecccccccccC----------cccccccccC--CCCccCCCCCCCcccccccccccChhHHHHHHHHh
Q 038715 159 SRDNIENSLRPLSMSSVGVMVSS----------NLDPILTSRV--SKPYLSSVCGSNACAMAIGSSFTSSTALLQKAAEM 226 (332)
Q Consensus 159 ~h~~~h~~~k~~~C~~C~k~F~~----------~~~L~~H~~~--~~p~~C~~C~~~~~~~~~~~~f~~~~~L~~H~~~~ 226 (332)
.|.++|.+++|+.|..|++.|.. .+.|..|..+ .+++.|..|+ +.++. ..|..|.-..
T Consensus 494 ~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~CG~rt~~C~~Cg---------k~Vrl-rdm~~H~~~~ 563 (567)
T PLN03086 494 QHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESICGSRTAPCDSCG---------RSVML-KEMDIHQIAV 563 (567)
T ss_pred hhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhcCCcceEccccC---------Ceeee-hhHHHHHHHh
Confidence 48888899999999999999852 3478899888 8999999999 55554 3456666555
Q ss_pred cc
Q 038715 227 GT 228 (332)
Q Consensus 227 ~~ 228 (332)
+.
T Consensus 564 h~ 565 (567)
T PLN03086 564 HQ 565 (567)
T ss_pred hc
Confidence 44
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.91 E-value=1.8e-09 Score=104.44 Aligned_cols=53 Identities=23% Similarity=0.463 Sum_probs=27.1
Q ss_pred CCccCChhhHhhhhccccCCCccccccChhhhcCchhhHHHHHH-hCCCCeeee-cCCcc
Q 038715 60 SRALGDLTGVKKHFCRKHGEKKWKCDKCSKCYAVQSDWKAHTKI-CGTREHRCD-CGIIF 117 (332)
Q Consensus 60 ~~~f~~~~~L~~H~~~h~~ek~~~C~~C~~~f~~~~~L~~H~~~-h~~k~~~C~-C~k~f 117 (332)
++.|. ...|..|+..|+ +++.|+ |++.+ .+..|..|+.. +..+++.|. |++.|
T Consensus 460 gk~f~-~s~LekH~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v 514 (567)
T PLN03086 460 GQAFQ-QGEMEKHMKVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMV 514 (567)
T ss_pred CCccc-hHHHHHHHHhcC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCcc
Confidence 55553 344555555543 455555 55433 34555555554 355555555 55555
No 13
>PHA00733 hypothetical protein
Probab=98.89 E-value=4.3e-10 Score=89.23 Aligned_cols=56 Identities=16% Similarity=0.271 Sum_probs=51.0
Q ss_pred CCCCceecccccccccCcccccccccC-CCCccCCCCCCCcccccccccccChhHHHHHHHHhccc
Q 038715 165 NSLRPLSMSSVGVMVSSNLDPILTSRV-SKPYLSSVCGSNACAMAIGSSFTSSTALLQKAAEMGTM 229 (332)
Q Consensus 165 ~~~k~~~C~~C~k~F~~~~~L~~H~~~-~~p~~C~~C~~~~~~~~~~~~f~~~~~L~~H~~~~~~~ 229 (332)
.+++||.|+.|++.|.+...|..|++. +.+|.|++|+ +.|....+|..|+++.+..
T Consensus 69 ~~~kPy~C~~Cgk~Fss~s~L~~H~r~h~~~~~C~~Cg---------K~F~~~~sL~~H~~~~h~~ 125 (128)
T PHA00733 69 KAVSPYVCPLCLMPFSSSVSLKQHIRYTEHSKVCPVCG---------KEFRNTDSTLDHVCKKHNI 125 (128)
T ss_pred CCCCCccCCCCCCcCCCHHHHHHHHhcCCcCccCCCCC---------CccCCHHHHHHHHHHhcCc
Confidence 347899999999999999999999997 7889999999 9999999999999988753
No 14
>PHA00733 hypothetical protein
Probab=98.73 E-value=8e-09 Score=81.96 Aligned_cols=51 Identities=22% Similarity=0.316 Sum_probs=27.2
Q ss_pred CcceecCCCCCCCCCCCCccCChhhHhhhhccccCCCccccccChhhhcCchhhHHHHHH
Q 038715 44 KGVYVCPKPNCVHHHPSRALGDLTGVKKHFCRKHGEKKWKCDKCSKCYAVQSDWKAHTKI 103 (332)
Q Consensus 44 ~~~~~C~~C~C~~~~~~~~f~~~~~L~~H~~~h~~ek~~~C~~C~~~f~~~~~L~~H~~~ 103 (332)
.++|.|+.| ++.|.....|..|++.| +.+|.|+.|++.|.....|..|+..
T Consensus 71 ~kPy~C~~C-------gk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~sL~~H~~~ 121 (128)
T PHA00733 71 VSPYVCPLC-------LMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDSTLDHVCK 121 (128)
T ss_pred CCCccCCCC-------CCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHHHHHHHHH
Confidence 445555555 55555555555555544 2345555555555555555555554
No 15
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.53 E-value=6.3e-08 Score=88.48 Aligned_cols=195 Identities=14% Similarity=0.168 Sum_probs=102.3
Q ss_pred eecccccccccChhHHHHHHHhcCCCcccccCccccCCCcceecCCCCCCCCCCCCccCChhhHhhhhccccCCCccc--
Q 038715 6 YICEVCHKGFQRDQNLQLHRKGHNLPWKLMQRPTTQVKKGVYVCPKPNCVHHHPSRALGDLTGVKKHFCRKHGEKKWK-- 83 (332)
Q Consensus 6 ~~C~~C~k~f~~~~~L~~H~~~h~~~~~l~~~~~~~~~~~~~~C~~C~C~~~~~~~~f~~~~~L~~H~~~h~~ek~~~-- 83 (332)
|.|..|-..|.+...|.+|.=.-. ....|+|++| ++.|....+|..|.|+|.-...-.
T Consensus 268 yiCqLCK~kYeD~F~LAQHrC~RI-------------V~vEYrCPEC-------~KVFsCPANLASHRRWHKPR~eaa~a 327 (500)
T KOG3993|consen 268 YICQLCKEKYEDAFALAQHRCPRI-------------VHVEYRCPEC-------DKVFSCPANLASHRRWHKPRPEAAKA 327 (500)
T ss_pred HHHHHHHHhhhhHHHHhhccCCee-------------EEeeecCCcc-------cccccCchhhhhhhcccCCchhhhhc
Confidence 778888888888888888852221 3346888888 888888888888888875211000
Q ss_pred -cccChhhhcCchhhHHHHHH---hCCCCeeee-cCCccccchhHhhcCCccchhhhhccCC----------CCccCCCC
Q 038715 84 -CDKCSKCYAVQSDWKAHTKI---CGTREHRCD-CGIIFSSQNLAASGGMAQSQAQELFSSS----------MPSTDSDS 148 (332)
Q Consensus 84 -C~~C~~~f~~~~~L~~H~~~---h~~k~~~C~-C~k~f~~~~~l~~h~~~~~~~~~~~~~~----------~~~~c~~c 148 (332)
-+.=.+.-.+....+.-.+. ..+..|.|. |+|.|.++..|+.|+..|.+....-... ..+-+..+
T Consensus 328 ~~~P~k~~~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~ 407 (500)
T KOG3993|consen 328 GSPPPKQAVETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAV 407 (500)
T ss_pred CCCChhhhhhhhhhhhhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhccccccccccc
Confidence 00000000000000000000 011235555 6666665555555433322211111000 11222333
Q ss_pred cccccCCCC-cccccccCC-CCceecccccccccCcccccccccC---CCCccCCCCCCCcccccccccccChhHHHHHH
Q 038715 149 NTNIRMNPS-ISRDNIENS-LRPLSMSSVGVMVSSNLDPILTSRV---SKPYLSSVCGSNACAMAIGSSFTSSTALLQKA 223 (332)
Q Consensus 149 ~~~f~~~~~-~~h~~~h~~-~k~~~C~~C~k~F~~~~~L~~H~~~---~~p~~C~~C~~~~~~~~~~~~f~~~~~L~~H~ 223 (332)
...+..... -.+.-.+.+ .....|+.|+--+.++..--.|.+. +.-|.|.+|. ..|.+...|.+|+
T Consensus 408 a~h~~a~~~~g~~vl~~a~sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~---------atfyss~~ltrhi 478 (500)
T KOG3993|consen 408 ATHSSASDSHGDEVLYVAGSAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCP---------ATFYSSPGLTRHI 478 (500)
T ss_pred ccccccccccccceeeeeccccccCCCCCCCCcccCCCCCccccccchhhccccccch---------HhhhcCcchHhHh
Confidence 332221111 111111111 2234578888888888877777766 8888899999 8888888888887
Q ss_pred HHhccc
Q 038715 224 AEMGTM 229 (332)
Q Consensus 224 ~~~~~~ 229 (332)
...|..
T Consensus 479 n~~Hps 484 (500)
T KOG3993|consen 479 NKCHPS 484 (500)
T ss_pred hhcChH
Confidence 766643
No 16
>PHA02768 hypothetical protein; Provisional
Probab=98.44 E-value=6.9e-08 Score=63.60 Aligned_cols=35 Identities=9% Similarity=0.179 Sum_probs=18.4
Q ss_pred CCccCChhhHhhhhccccCCCccccccChhhhcCchh
Q 038715 60 SRALGDLTGVKKHFCRKHGEKKWKCDKCSKCYAVQSD 96 (332)
Q Consensus 60 ~~~f~~~~~L~~H~~~h~~ek~~~C~~C~~~f~~~~~ 96 (332)
++.|...+.|..|+++|+ ++|+|..|++.|...+.
T Consensus 12 GK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~ 46 (55)
T PHA02768 12 GEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGE 46 (55)
T ss_pred CCeeccHHHHHHHHHhcC--CcccCCcccceecccce
Confidence 555555555555555554 34555555555554443
No 17
>PHA02768 hypothetical protein; Provisional
Probab=98.40 E-value=1.7e-07 Score=61.78 Aligned_cols=47 Identities=17% Similarity=0.202 Sum_probs=41.1
Q ss_pred CCCceecccccccccChhHHHHHHHhcCCCcccccCccccCCCcceecCCCCCCCCCCCCccCChhhHh
Q 038715 2 ATNRYICEVCHKGFQRDQNLQLHRKGHNLPWKLMQRPTTQVKKGVYVCPKPNCVHHHPSRALGDLTGVK 70 (332)
Q Consensus 2 ~~k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~l~~~~~~~~~~~~~~C~~C~C~~~~~~~~f~~~~~L~ 70 (332)
+---|+|+.||+.|.+..+|..|++.|. ++|+|..| ++.|...+.|.
T Consensus 2 ~~~~y~C~~CGK~Fs~~~~L~~H~r~H~---------------k~~kc~~C-------~k~f~~~s~l~ 48 (55)
T PHA02768 2 ALLGYECPICGEIYIKRKSMITHLRKHN---------------TNLKLSNC-------KRISLRTGEYI 48 (55)
T ss_pred cccccCcchhCCeeccHHHHHHHHHhcC---------------CcccCCcc-------cceecccceeE
Confidence 4456999999999999999999999994 58899999 99998877664
No 18
>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=2e-07 Score=52.35 Aligned_cols=25 Identities=32% Similarity=0.844 Sum_probs=19.7
Q ss_pred hHhhhhccccCCCccccccChhhhc
Q 038715 68 GVKKHFCRKHGEKKWKCDKCSKCYA 92 (332)
Q Consensus 68 ~L~~H~~~h~~ek~~~C~~C~~~f~ 92 (332)
+|..|+++|++++||.|+.|++.|.
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEES
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeC
Confidence 4677888888888888888888775
No 19
>PHA00616 hypothetical protein
Probab=97.92 E-value=3.9e-06 Score=52.64 Aligned_cols=34 Identities=18% Similarity=0.268 Sum_probs=30.6
Q ss_pred ceecccccccccChhHHHHHHHhcCCCcccccCccccCCCcceecCC
Q 038715 5 RYICEVCHKGFQRDQNLQLHRKGHNLPWKLMQRPTTQVKKGVYVCPK 51 (332)
Q Consensus 5 ~~~C~~C~k~f~~~~~L~~H~~~h~~~~~l~~~~~~~~~~~~~~C~~ 51 (332)
||+|+.||+.|..+++|..|++.|+ +++++.|+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~h-------------g~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVH-------------KQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhc-------------CCCccceeE
Confidence 7999999999999999999999998 778877754
No 20
>PHA00616 hypothetical protein
Probab=97.85 E-value=9.1e-06 Score=50.98 Aligned_cols=32 Identities=9% Similarity=0.267 Sum_probs=18.2
Q ss_pred ccccccChhhhcCchhhHHHHHH-hCCCCeeee
Q 038715 81 KWKCDKCSKCYAVQSDWKAHTKI-CGTREHRCD 112 (332)
Q Consensus 81 ~~~C~~C~~~f~~~~~L~~H~~~-h~~k~~~C~ 112 (332)
||+|..||+.|..+++|..|++. |+++++.|+
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcccee
Confidence 35555556666555556555555 555555543
No 21
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=97.82 E-value=2.5e-06 Score=78.30 Aligned_cols=110 Identities=14% Similarity=0.184 Sum_probs=72.0
Q ss_pred CcceecCCCCCCCCCCCCccCChhhHhhhhccccCCCccccccChhhhcCchhhHHHHHHhCCCCeee--e--cCC-ccc
Q 038715 44 KGVYVCPKPNCVHHHPSRALGDLTGVKKHFCRKHGEKKWKCDKCSKCYAVQSDWKAHTKICGTREHRC--D--CGI-IFS 118 (332)
Q Consensus 44 ~~~~~C~~C~C~~~~~~~~f~~~~~L~~H~~~h~~ek~~~C~~C~~~f~~~~~L~~H~~~h~~k~~~C--~--C~k-~f~ 118 (332)
...|.|..| ...|.+...|.+|.....-.--|+|++|+|.|.-..+|..|.|.|..++-.- . =.+ ...
T Consensus 265 iGdyiCqLC-------K~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~ 337 (500)
T KOG3993|consen 265 IGDYICQLC-------KEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVE 337 (500)
T ss_pred HHHHHHHHH-------HHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhh
Confidence 346999999 9999999999999865554455999999999999999999999885443211 0 000 011
Q ss_pred cchhHhhcCCccchhhhhccCCCCccCCCCccccc-CCCCcccccccC
Q 038715 119 SQNLAASGGMAQSQAQELFSSSMPSTDSDSNTNIR-MNPSISRDNIEN 165 (332)
Q Consensus 119 ~~~~l~~h~~~~~~~~~~~~~~~~~~c~~c~~~f~-~~~~~~h~~~h~ 165 (332)
.+...+...+ .-..+.+-.|.|.+|++.|+ ...+.+|+.+|.
T Consensus 338 ~rae~~ea~r-----sg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq 380 (500)
T KOG3993|consen 338 TRAEVQEAER-----SGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQ 380 (500)
T ss_pred hhhhhhhccc-----cCCcccCceeecHHhhhhhHHHHHHHHhHHhhh
Confidence 1111110000 00113445799999999997 444466766554
No 22
>PHA00732 hypothetical protein
Probab=97.80 E-value=6.2e-06 Score=59.50 Aligned_cols=43 Identities=16% Similarity=0.143 Sum_probs=33.7
Q ss_pred ceecccccccccCcccccccccC-CCCccCCCCCCCcccccccccccChhHHHHHH
Q 038715 169 PLSMSSVGVMVSSNLDPILTSRV-SKPYLSSVCGSNACAMAIGSSFTSSTALLQKA 223 (332)
Q Consensus 169 ~~~C~~C~k~F~~~~~L~~H~~~-~~p~~C~~C~~~~~~~~~~~~f~~~~~L~~H~ 223 (332)
||.|..|++.|.+..+|..|++. ..++.|+.|+ +.|. .|..|.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~~~C~~Cg---------KsF~---~l~~H~ 44 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTLTKCPVCN---------KSYR---RLNQHF 44 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCCCccCCCC---------CEeC---Chhhhh
Confidence 57888888888888888888874 6677888888 7775 466665
No 23
>PHA00732 hypothetical protein
Probab=97.74 E-value=2.3e-05 Score=56.52 Aligned_cols=47 Identities=19% Similarity=0.417 Sum_probs=33.8
Q ss_pred ceecccccccccChhHHHHHHHh-cCCCcccccCccccCCCcceecCCCCCCCCCCCCccCChhhHhhhhcccc
Q 038715 5 RYICEVCHKGFQRDQNLQLHRKG-HNLPWKLMQRPTTQVKKGVYVCPKPNCVHHHPSRALGDLTGVKKHFCRKH 77 (332)
Q Consensus 5 ~~~C~~C~k~f~~~~~L~~H~~~-h~~~~~l~~~~~~~~~~~~~~C~~C~C~~~~~~~~f~~~~~L~~H~~~h~ 77 (332)
||+|+.|++.|.+...|+.|++. |. ++.|+.| ++.|. .|..|..++.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~----------------~~~C~~C-------gKsF~---~l~~H~~~~~ 48 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT----------------LTKCPVC-------NKSYR---RLNQHFYSQY 48 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC----------------CCccCCC-------CCEeC---ChhhhhcccC
Confidence 57788888888888888888774 42 2468888 78776 4777775554
No 24
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=97.71 E-value=2.1e-05 Score=44.09 Aligned_cols=25 Identities=28% Similarity=0.578 Sum_probs=22.8
Q ss_pred HHHHHHHhcCCCcccccCccccCCCcceecCCCCCCCCCCCCccC
Q 038715 20 NLQLHRKGHNLPWKLMQRPTTQVKKGVYVCPKPNCVHHHPSRALG 64 (332)
Q Consensus 20 ~L~~H~~~h~~~~~l~~~~~~~~~~~~~~C~~C~C~~~~~~~~f~ 64 (332)
+|.+|+++|+ ++++|.|+.| ++.|.
T Consensus 1 ~l~~H~~~H~-------------~~k~~~C~~C-------~k~F~ 25 (26)
T PF13465_consen 1 NLRRHMRTHT-------------GEKPYKCPYC-------GKSFS 25 (26)
T ss_dssp HHHHHHHHHS-------------SSSSEEESSS-------SEEES
T ss_pred CHHHHhhhcC-------------CCCCCCCCCC-------cCeeC
Confidence 5889999998 9999999999 99886
No 25
>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=97.67 E-value=2.8e-05 Score=42.09 Aligned_cols=23 Identities=39% Similarity=0.873 Sum_probs=21.6
Q ss_pred eecccccccccChhHHHHHHHhc
Q 038715 6 YICEVCHKGFQRDQNLQLHRKGH 28 (332)
Q Consensus 6 ~~C~~C~k~f~~~~~L~~H~~~h 28 (332)
|+|+.|++.|.++..|..|++.|
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 79999999999999999999875
No 26
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.47 E-value=6.6e-05 Score=66.64 Aligned_cols=71 Identities=13% Similarity=0.132 Sum_probs=45.6
Q ss_pred CCCCeeee---cCCccccchhHhhcCCccchhhhhccCCCCccCCCCcccccCCCCcccccccCCCCceecccccccccC
Q 038715 105 GTREHRCD---CGIIFSSQNLAASGGMAQSQAQELFSSSMPSTDSDSNTNIRMNPSISRDNIENSLRPLSMSSVGVMVSS 181 (332)
Q Consensus 105 ~~k~~~C~---C~k~f~~~~~l~~h~~~~~~~~~~~~~~~~~~c~~c~~~f~~~~~~~h~~~h~~~k~~~C~~C~k~F~~ 181 (332)
++|||+|+ |.|.+.++.-|+-|...-++.+..|....| ..+...-...|||.|++|+|.|..
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p---------------~~~~~F~~~~KPYrCevC~KRYKN 410 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSP---------------EKMNIFSAKDKPYRCEVCDKRYKN 410 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhccccCcccCCCCCc---------------cccccccccCCceeccccchhhcc
Confidence 34778883 888888877777655433333333322211 124444556789999999999998
Q ss_pred ccccccccc
Q 038715 182 NLDPILTSR 190 (332)
Q Consensus 182 ~~~L~~H~~ 190 (332)
..-|+-|+.
T Consensus 411 lNGLKYHr~ 419 (423)
T COG5189 411 LNGLKYHRK 419 (423)
T ss_pred Cccceeccc
Confidence 888888864
No 27
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.33 E-value=7.7e-05 Score=66.25 Aligned_cols=26 Identities=27% Similarity=0.638 Sum_probs=16.4
Q ss_pred CcceecCCCCCCCCCCCCccCChhhHhhhhc
Q 038715 44 KGVYVCPKPNCVHHHPSRALGDLTGVKKHFC 74 (332)
Q Consensus 44 ~~~~~C~~C~C~~~~~~~~f~~~~~L~~H~~ 74 (332)
++||+|++-|| .+.++....|+-|+.
T Consensus 347 ~KpykCpV~gC-----~K~YknqnGLKYH~l 372 (423)
T COG5189 347 GKPYKCPVEGC-----NKKYKNQNGLKYHML 372 (423)
T ss_pred CceecCCCCCc-----hhhhccccchhhhhh
Confidence 46666666655 666666666666653
No 28
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=97.22 E-value=0.00034 Score=46.65 Aligned_cols=22 Identities=23% Similarity=0.427 Sum_probs=12.7
Q ss_pred ceecccccccccChhHHHHHHHh
Q 038715 5 RYICEVCHKGFQRDQNLQLHRKG 27 (332)
Q Consensus 5 ~~~C~~C~k~f~~~~~L~~H~~~ 27 (332)
.|.|+.|++ ..+...|..|...
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~ 23 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCED 23 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHh
Confidence 366666666 3445566666443
No 29
>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=97.14 E-value=0.00026 Score=39.87 Aligned_cols=25 Identities=28% Similarity=0.635 Sum_probs=23.5
Q ss_pred ceecccccccccChhHHHHHHHhcC
Q 038715 5 RYICEVCHKGFQRDQNLQLHRKGHN 29 (332)
Q Consensus 5 ~~~C~~C~k~f~~~~~L~~H~~~h~ 29 (332)
||+|..|++.|.+...|..|++.|.
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 6999999999999999999998884
No 30
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.13 E-value=0.00036 Score=37.78 Aligned_cols=23 Identities=30% Similarity=0.821 Sum_probs=19.8
Q ss_pred eecccccccccChhHHHHHHHhc
Q 038715 6 YICEVCHKGFQRDQNLQLHRKGH 28 (332)
Q Consensus 6 ~~C~~C~k~f~~~~~L~~H~~~h 28 (332)
|.|+.|++.|.+...|..|++.|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHhh
Confidence 78999999999999999999876
No 31
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.05 E-value=0.00024 Score=38.31 Aligned_cols=21 Identities=33% Similarity=0.830 Sum_probs=11.2
Q ss_pred cccccChhhhcCchhhHHHHH
Q 038715 82 WKCDKCSKCYAVQSDWKAHTK 102 (332)
Q Consensus 82 ~~C~~C~~~f~~~~~L~~H~~ 102 (332)
|+|+.|++.|.++..|..|++
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 345555555555555555554
No 32
>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=96.98 E-value=0.00092 Score=44.55 Aligned_cols=49 Identities=18% Similarity=0.278 Sum_probs=37.2
Q ss_pred ceecCCCCCCCCCCCCccCChhhHhhhhcc-ccCC-CccccccChhhhcCchhhHHHHHH-h
Q 038715 46 VYVCPKPNCVHHHPSRALGDLTGVKKHFCR-KHGE-KKWKCDKCSKCYAVQSDWKAHTKI-C 104 (332)
Q Consensus 46 ~~~C~~C~C~~~~~~~~f~~~~~L~~H~~~-h~~e-k~~~C~~C~~~f~~~~~L~~H~~~-h 104 (332)
.|.||+| ++ ..+...|..|... |..+ +.+.|++|...+. .+|..|+.. |
T Consensus 2 ~f~CP~C-------~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPYC-------GK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCCC-------CC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 4789999 88 4556789999654 4443 4699999998655 489999987 5
No 33
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.73 E-value=0.00093 Score=50.21 Aligned_cols=72 Identities=8% Similarity=0.089 Sum_probs=23.1
Q ss_pred cCCCCccccc-CCCCcccccccCCCCceecccccccccCcccccccccC--CCCccCCCCCCCcccccccccccChhHHH
Q 038715 144 TDSDSNTNIR-MNPSISRDNIENSLRPLSMSSVGVMVSSNLDPILTSRV--SKPYLSSVCGSNACAMAIGSSFTSSTALL 220 (332)
Q Consensus 144 ~c~~c~~~f~-~~~~~~h~~~h~~~k~~~C~~C~k~F~~~~~L~~H~~~--~~p~~C~~C~~~~~~~~~~~~f~~~~~L~ 220 (332)
.|..|+..|. ...++.|+....+.. .+ ....+.....|..+.+. ...+.|..|+ +.|.+..+|.
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~---~~-~~~~l~~~~~~~~~~~~~~~~~~~C~~C~---------~~f~s~~~l~ 67 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFD---IP-DQKYLVDPNRLLNYLRKKVKESFRCPYCN---------KTFRSREALQ 67 (100)
T ss_dssp ----------------------------------------------------SSEEBSSSS----------EESSHHHHH
T ss_pred Cccccccccccccccccccccccccc---cc-cccccccccccccccccccCCCCCCCccC---------CCCcCHHHHH
Confidence 3667777765 333355654322211 00 12222234444444444 4579999999 9999999999
Q ss_pred HHHHHhcc
Q 038715 221 QKAAEMGT 228 (332)
Q Consensus 221 ~H~~~~~~ 228 (332)
.|++..+-
T Consensus 68 ~Hm~~~~H 75 (100)
T PF12756_consen 68 EHMRSKHH 75 (100)
T ss_dssp HHHHHTTT
T ss_pred HHHcCccC
Confidence 99997643
No 34
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.42 E-value=0.0014 Score=49.24 Aligned_cols=72 Identities=19% Similarity=0.414 Sum_probs=19.1
Q ss_pred ecccccccccChhHHHHHHHhcCCCcccccCccccCCCcceecCCCCCCCCCCCCccCChhhHhhhhccccCCCcccccc
Q 038715 7 ICEVCHKGFQRDQNLQLHRKGHNLPWKLMQRPTTQVKKGVYVCPKPNCVHHHPSRALGDLTGVKKHFCRKHGEKKWKCDK 86 (332)
Q Consensus 7 ~C~~C~k~f~~~~~L~~H~~~h~~~~~l~~~~~~~~~~~~~~C~~C~C~~~~~~~~f~~~~~L~~H~~~h~~ek~~~C~~ 86 (332)
+|..|+..|.....|..|+...+ +.. .+. ...+.....+..+.+... ...+.|..
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H-------------~~~---~~~--------~~~l~~~~~~~~~~~~~~-~~~~~C~~ 55 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKH-------------GFD---IPD--------QKYLVDPNRLLNYLRKKV-KESFRCPY 55 (100)
T ss_dssp -------------------------------------------------------------------------SSEEBSS
T ss_pred Ccccccccccccccccccccccc-------------ccc---ccc--------cccccccccccccccccc-CCCCCCCc
Confidence 59999999999999999986553 111 000 112222333333333222 22588888
Q ss_pred ChhhhcCchhhHHHHHH
Q 038715 87 CSKCYAVQSDWKAHTKI 103 (332)
Q Consensus 87 C~~~f~~~~~L~~H~~~ 103 (332)
|++.|.+...|..|++.
T Consensus 56 C~~~f~s~~~l~~Hm~~ 72 (100)
T PF12756_consen 56 CNKTFRSREALQEHMRS 72 (100)
T ss_dssp SS-EESSHHHHHHHHHH
T ss_pred cCCCCcCHHHHHHHHcC
Confidence 88888888888888887
No 35
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=96.33 E-value=0.0033 Score=33.79 Aligned_cols=23 Identities=30% Similarity=0.587 Sum_probs=15.9
Q ss_pred ccCCCCCCCcccccccccccChhHHHHHHHHh
Q 038715 195 YLSSVCGSNACAMAIGSSFTSSTALLQKAAEM 226 (332)
Q Consensus 195 ~~C~~C~~~~~~~~~~~~f~~~~~L~~H~~~~ 226 (332)
|+|++|+ +.|.+...|.+|+..+
T Consensus 1 ~~C~~C~---------~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPICG---------KSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SSTS----------EESSHHHHHHHHHHH
T ss_pred CCCcCCC---------CcCCcHHHHHHHHHhh
Confidence 5677888 7788888888887655
No 36
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=96.17 E-value=0.0033 Score=40.43 Aligned_cols=33 Identities=15% Similarity=0.298 Sum_probs=22.1
Q ss_pred ccCCCccccccChhhhcCchhhHHHHHH-hCCCC
Q 038715 76 KHGEKKWKCDKCSKCYAVQSDWKAHTKI-CGTRE 108 (332)
Q Consensus 76 h~~ek~~~C~~C~~~f~~~~~L~~H~~~-h~~k~ 108 (332)
+..+.|..|++|+..+....+|++|+.+ |+.||
T Consensus 19 ~~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 19 SQSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp CTTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred hccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 3456788999999999999999999988 87665
No 37
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.17 E-value=0.0033 Score=34.36 Aligned_cols=24 Identities=33% Similarity=0.660 Sum_probs=22.0
Q ss_pred eecccccccccChhHHHHHHHhcC
Q 038715 6 YICEVCHKGFQRDQNLQLHRKGHN 29 (332)
Q Consensus 6 ~~C~~C~k~f~~~~~L~~H~~~h~ 29 (332)
|+|..|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 689999999999999999998774
No 38
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=95.71 E-value=0.0077 Score=57.30 Aligned_cols=148 Identities=14% Similarity=0.120 Sum_probs=88.3
Q ss_pred cceecCCCCCCCCCCCCccCChhhHhhhhc--cccCC--Cccccc--cChhhhcCchhhHHHHHH-hCCCCeee--e-cC
Q 038715 45 GVYVCPKPNCVHHHPSRALGDLTGVKKHFC--RKHGE--KKWKCD--KCSKCYAVQSDWKAHTKI-CGTREHRC--D-CG 114 (332)
Q Consensus 45 ~~~~C~~C~C~~~~~~~~f~~~~~L~~H~~--~h~~e--k~~~C~--~C~~~f~~~~~L~~H~~~-h~~k~~~C--~-C~ 114 (332)
.++.|..| ...|.....|..|.+ .|.++ +++.|+ .|++.|.....+..|... .+.+++.+ . |.
T Consensus 288 ~~~~~~~~-------~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 360 (467)
T COG5048 288 LPIKSKQC-------NISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSS 360 (467)
T ss_pred cCCCCccc-------cCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCc
Confidence 46777777 788888888888888 78888 888888 688888888888888887 45555665 2 55
Q ss_pred CccccchhHhhcCCccchhhhhccCCCCccCCC--CcccccCC-CCcccccccCCCC--ceecccccccccCcccccccc
Q 038715 115 IIFSSQNLAASGGMAQSQAQELFSSSMPSTDSD--SNTNIRMN-PSISRDNIENSLR--PLSMSSVGVMVSSNLDPILTS 189 (332)
Q Consensus 115 k~f~~~~~l~~h~~~~~~~~~~~~~~~~~~c~~--c~~~f~~~-~~~~h~~~h~~~k--~~~C~~C~k~F~~~~~L~~H~ 189 (332)
+.+.....-..+.. ............+.+.. |...+... ....|...|...+ .+.+..|.+.|.....|..|+
T Consensus 361 ~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 438 (467)
T COG5048 361 SKFSPLLNNEPPQS--LQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHK 438 (467)
T ss_pred cccccccCCCCccc--hhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCcccccccc
Confidence 55554322110000 00111111222233322 33333322 2233445555544 566788999999999999998
Q ss_pred cC---CCCccCCCCC
Q 038715 190 RV---SKPYLSSVCG 201 (332)
Q Consensus 190 ~~---~~p~~C~~C~ 201 (332)
+. ..++.|..+.
T Consensus 439 ~~~~~~~~~~~~~~~ 453 (467)
T COG5048 439 KIHTNHAPLLCSILK 453 (467)
T ss_pred cccccCCceeecccc
Confidence 88 4455554444
No 39
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=95.62 E-value=0.0072 Score=33.80 Aligned_cols=24 Identities=13% Similarity=0.418 Sum_probs=14.0
Q ss_pred eecCCCCCCCCCCCCccCChhhHhhhhcccc
Q 038715 47 YVCPKPNCVHHHPSRALGDLTGVKKHFCRKH 77 (332)
Q Consensus 47 ~~C~~C~C~~~~~~~~f~~~~~L~~H~~~h~ 77 (332)
|.|..| ++.|.....|..|++.|.
T Consensus 2 ~~C~~C-------~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 2 FECDEC-------GKTFSSLSALREHKRSHC 25 (27)
T ss_dssp EEETTT-------TEEESSHHHHHHHHCTTT
T ss_pred CCCCcc-------CCccCChhHHHHHhHHhc
Confidence 556665 666666666666655543
No 40
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=95.57 E-value=0.0079 Score=32.94 Aligned_cols=23 Identities=26% Similarity=0.879 Sum_probs=21.2
Q ss_pred eecccccccccChhHHHHHHHhc
Q 038715 6 YICEVCHKGFQRDQNLQLHRKGH 28 (332)
Q Consensus 6 ~~C~~C~k~f~~~~~L~~H~~~h 28 (332)
|.|+.|++.|.+...|+.|++.+
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 78999999999999999998764
No 41
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=95.24 E-value=0.018 Score=37.11 Aligned_cols=27 Identities=19% Similarity=0.406 Sum_probs=19.9
Q ss_pred CCceecccccccccChhHHHHHHHhcC
Q 038715 3 TNRYICEVCHKGFQRDQNLQLHRKGHN 29 (332)
Q Consensus 3 ~k~~~C~~C~k~f~~~~~L~~H~~~h~ 29 (332)
+.|..|++|+..+.+..+|++|+..++
T Consensus 22 ~~PatCP~C~a~~~~srnLrRHle~~H 48 (54)
T PF09237_consen 22 EQPATCPICGAVIRQSRNLRRHLEIRH 48 (54)
T ss_dssp S--EE-TTT--EESSHHHHHHHHHHHT
T ss_pred CCCCCCCcchhhccchhhHHHHHHHHh
Confidence 578999999999999999999997665
No 42
>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=94.76 E-value=0.0095 Score=33.42 Aligned_cols=22 Identities=9% Similarity=-0.053 Sum_probs=18.6
Q ss_pred eecccccccccCcccccccccC
Q 038715 170 LSMSSVGVMVSSNLDPILTSRV 191 (332)
Q Consensus 170 ~~C~~C~k~F~~~~~L~~H~~~ 191 (332)
|-|..|++.|.+...|..|+++
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 43
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=94.59 E-value=0.0058 Score=33.49 Aligned_cols=19 Identities=11% Similarity=-0.218 Sum_probs=8.8
Q ss_pred ecccccccccCcccccccc
Q 038715 171 SMSSVGVMVSSNLDPILTS 189 (332)
Q Consensus 171 ~C~~C~k~F~~~~~L~~H~ 189 (332)
.|.+|++.|.+...|..|+
T Consensus 2 ~C~~C~~~f~s~~~~~~H~ 20 (25)
T PF12874_consen 2 YCDICNKSFSSENSLRQHL 20 (25)
T ss_dssp EETTTTEEESSHHHHHHHH
T ss_pred CCCCCCCCcCCHHHHHHHH
Confidence 3444444444444444443
No 44
>PRK04860 hypothetical protein; Provisional
Probab=94.55 E-value=0.016 Score=47.74 Aligned_cols=35 Identities=26% Similarity=0.667 Sum_probs=20.0
Q ss_pred ccccccChhhhcCchhhHHHHHH-hCCCCeeee-cCCcccc
Q 038715 81 KWKCDKCSKCYAVQSDWKAHTKI-CGTREHRCD-CGIIFSS 119 (332)
Q Consensus 81 ~~~C~~C~~~f~~~~~L~~H~~~-h~~k~~~C~-C~k~f~~ 119 (332)
+|.|. |+. ....+.+|.++ .++++|.|. |+..|..
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~ 155 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVF 155 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEE
Confidence 46665 654 45555666666 355666665 6665543
No 45
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=94.49 E-value=0.026 Score=59.61 Aligned_cols=33 Identities=9% Similarity=-0.049 Sum_probs=25.6
Q ss_pred ceecccccccccCcccccccccC----CCCccCCCCC
Q 038715 169 PLSMSSVGVMVSSNLDPILTSRV----SKPYLSSVCG 201 (332)
Q Consensus 169 ~~~C~~C~k~F~~~~~L~~H~~~----~~p~~C~~C~ 201 (332)
++.|.+|+..-.-..+|+.||.. ..|--|-.|.
T Consensus 589 ~~~C~vc~yetniarnlrihmtss~~s~~p~~~Lq~~ 625 (1406)
T KOG1146|consen 589 SWRCEVCSYETNIARNLRIHMTASPSSSPPSLVLQQN 625 (1406)
T ss_pred CcchhhhcchhhhhhccccccccCCCCCChHHHhhhc
Confidence 58899999999999999999988 2224455555
No 46
>PRK04860 hypothetical protein; Provisional
Probab=93.93 E-value=0.017 Score=47.62 Aligned_cols=29 Identities=24% Similarity=0.347 Sum_probs=14.5
Q ss_pred ceecccccccccCcccccccccC---CCCccCCCCC
Q 038715 169 PLSMSSVGVMVSSNLDPILTSRV---SKPYLSSVCG 201 (332)
Q Consensus 169 ~~~C~~C~k~F~~~~~L~~H~~~---~~p~~C~~C~ 201 (332)
+|.|. |++ ....+++|.++ +++|.|..|+
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~ 150 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCG 150 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCC
Confidence 45554 554 44444555444 4455555555
No 47
>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=93.88 E-value=0.021 Score=31.95 Aligned_cols=23 Identities=30% Similarity=0.785 Sum_probs=20.3
Q ss_pred ceecccccccccChhHHHHHHHh
Q 038715 5 RYICEVCHKGFQRDQNLQLHRKG 27 (332)
Q Consensus 5 ~~~C~~C~k~f~~~~~L~~H~~~ 27 (332)
.|-|..|++.|.+...|..|++.
T Consensus 1 q~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 1 QFYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp -CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCCcccCCCCcCCHHHHHHHHcc
Confidence 37899999999999999999865
No 48
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=93.71 E-value=0.054 Score=29.26 Aligned_cols=22 Identities=36% Similarity=0.638 Sum_probs=18.1
Q ss_pred eecccccccccChhHHHHHHHhc
Q 038715 6 YICEVCHKGFQRDQNLQLHRKGH 28 (332)
Q Consensus 6 ~~C~~C~k~f~~~~~L~~H~~~h 28 (332)
|+|+.|+.... +..|.+|++.|
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~ 22 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRH 22 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhh
Confidence 79999999988 99999999875
No 49
>smart00355 ZnF_C2H2 zinc finger.
Probab=93.54 E-value=0.086 Score=28.40 Aligned_cols=22 Identities=32% Similarity=0.569 Sum_probs=16.9
Q ss_pred ccCCCCCCCcccccccccccChhHHHHHHHH
Q 038715 195 YLSSVCGSNACAMAIGSSFTSSTALLQKAAE 225 (332)
Q Consensus 195 ~~C~~C~~~~~~~~~~~~f~~~~~L~~H~~~ 225 (332)
|+|+.|+ +.|.....|..|...
T Consensus 1 ~~C~~C~---------~~f~~~~~l~~H~~~ 22 (26)
T smart00355 1 YRCPECG---------KVFKSKSALKEHMRT 22 (26)
T ss_pred CCCCCCc---------chhCCHHHHHHHHHH
Confidence 5788888 888888888888763
No 50
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=92.69 E-value=0.063 Score=28.99 Aligned_cols=21 Identities=38% Similarity=0.681 Sum_probs=10.4
Q ss_pred cccccChhhhcCchhhHHHHHH
Q 038715 82 WKCDKCSKCYAVQSDWKAHTKI 103 (332)
Q Consensus 82 ~~C~~C~~~f~~~~~L~~H~~~ 103 (332)
|+|+.|+.... +..|..|++.
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~ 21 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKR 21 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHh
Confidence 45555555554 5555555555
No 51
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=92.14 E-value=0.087 Score=47.82 Aligned_cols=30 Identities=33% Similarity=0.690 Sum_probs=21.4
Q ss_pred ccccc--ChhhhcCchhhHHHHHH-hCCCCeeee-c
Q 038715 82 WKCDK--CSKCYAVQSDWKAHTKI-CGTREHRCD-C 113 (332)
Q Consensus 82 ~~C~~--C~~~f~~~~~L~~H~~~-h~~k~~~C~-C 113 (332)
|.|+. |.......-.|+.|.+. |+ .+.|. |
T Consensus 152 F~CP~skc~~~C~~~k~lk~H~K~~H~--~~~C~~C 185 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKAQHG--FVLCSEC 185 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhhcC--cEEhHhh
Confidence 67753 66666667788999998 73 36676 6
No 52
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=90.66 E-value=0.21 Score=27.43 Aligned_cols=21 Identities=29% Similarity=0.613 Sum_probs=17.9
Q ss_pred eecccccccccChhHHHHHHHh
Q 038715 6 YICEVCHKGFQRDQNLQLHRKG 27 (332)
Q Consensus 6 ~~C~~C~k~f~~~~~L~~H~~~ 27 (332)
.+|+.||+.| ....|..|+..
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 5799999999 67889999764
No 53
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=90.31 E-value=0.22 Score=29.46 Aligned_cols=25 Identities=24% Similarity=0.708 Sum_probs=21.6
Q ss_pred CceecccccccccChhHHHHHHHhc
Q 038715 4 NRYICEVCHKGFQRDQNLQLHRKGH 28 (332)
Q Consensus 4 k~~~C~~C~k~f~~~~~L~~H~~~h 28 (332)
.+|.|+.|++.|.....+..|++..
T Consensus 2 ~~~~C~~C~~~~~~~~~~~~H~~gk 26 (35)
T smart00451 2 GGFYCKLCNVTFTDEISVEAHLKGK 26 (35)
T ss_pred cCeEccccCCccCCHHHHHHHHChH
Confidence 3689999999999999999997643
No 54
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=90.08 E-value=0.14 Score=48.62 Aligned_cols=133 Identities=15% Similarity=0.191 Sum_probs=93.1
Q ss_pred CccccccChhhhcCchhhHHHHH--H-hCC--CCeeee---cCCccccchhHhhcCCccchhhhhccCCCCccCCC--Cc
Q 038715 80 KKWKCDKCSKCYAVQSDWKAHTK--I-CGT--REHRCD---CGIIFSSQNLAASGGMAQSQAQELFSSSMPSTDSD--SN 149 (332)
Q Consensus 80 k~~~C~~C~~~f~~~~~L~~H~~--~-h~~--k~~~C~---C~k~f~~~~~l~~h~~~~~~~~~~~~~~~~~~c~~--c~ 149 (332)
.++.|..|...|.....|..|.+ . .++ +++.|. |++.|.....+. .+..+|....++.+.. +.
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~ 360 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALK-------RHILLHTSISPAKEKLLNSS 360 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCcccccccccc-------CCcccccCCCccccccccCc
Confidence 47899999999999999999999 6 477 899996 999999999888 4566666666665544 33
Q ss_pred ccccCCCC------cccccccCCCCceec--ccccccccCcccccccccC-----CCCccCCCCCCCcccccccccccCh
Q 038715 150 TNIRMNPS------ISRDNIENSLRPLSM--SSVGVMVSSNLDPILTSRV-----SKPYLSSVCGSNACAMAIGSSFTSS 216 (332)
Q Consensus 150 ~~f~~~~~------~~h~~~h~~~k~~~C--~~C~k~F~~~~~L~~H~~~-----~~p~~C~~C~~~~~~~~~~~~f~~~ 216 (332)
..+..... ......-...+.+.| ..|-..+.+...+..|... ...+.+..|. +.+...
T Consensus 361 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~ 431 (467)
T COG5048 361 SKFSPLLNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCS---------KSFNRH 431 (467)
T ss_pred cccccccCCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcch---------hhccCc
Confidence 33321111 111112223445555 3478888888888888665 4467788899 888888
Q ss_pred hHHHHHHHHhcc
Q 038715 217 TALLQKAAEMGT 228 (332)
Q Consensus 217 ~~L~~H~~~~~~ 228 (332)
..|..|...+..
T Consensus 432 ~~~~~~~~~~~~ 443 (467)
T COG5048 432 YNLIPHKKIHTN 443 (467)
T ss_pred cccccccccccc
Confidence 888777665543
No 55
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.70 E-value=0.29 Score=48.95 Aligned_cols=107 Identities=12% Similarity=0.139 Sum_probs=57.6
Q ss_pred cccChhhhcCchhhHHHHHH-hCCCCeeee-c----------CCccccchhHhhcCCccchhhhhccCCCCccCCCCccc
Q 038715 84 CDKCSKCYAVQSDWKAHTKI-CGTREHRCD-C----------GIIFSSQNLAASGGMAQSQAQELFSSSMPSTDSDSNTN 151 (332)
Q Consensus 84 C~~C~~~f~~~~~L~~H~~~-h~~k~~~C~-C----------~k~f~~~~~l~~h~~~~~~~~~~~~~~~~~~c~~c~~~ 151 (332)
|..| -.|.....|+.|+.. | +.+.|. | .+.|....++.++..-.. -.+.+.+ .-.|..|...
T Consensus 118 ~~~c-~~~~s~~~Lk~H~~~~H--~~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~-d~~s~rG--hp~C~~C~~~ 191 (669)
T KOG2231|consen 118 CLHC-TEFKSVENLKNHMRDQH--KLHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDP-DDESCRG--HPLCKFCHER 191 (669)
T ss_pred Cccc-cchhHHHHHHHHHHHhh--hhhccccccccceeeeeeeehehHHHHHHHHhcCCC-ccccccC--Cccchhhhhh
Confidence 3344 344478899999987 7 334443 3 344444444432111111 1111111 3467778877
Q ss_pred ccCCC-CcccccccCCCCceecccc------cccccCcccccccccCCCCccCC--CCC
Q 038715 152 IRMNP-SISRDNIENSLRPLSMSSV------GVMVSSNLDPILTSRVSKPYLSS--VCG 201 (332)
Q Consensus 152 f~~~~-~~~h~~~h~~~k~~~C~~C------~k~F~~~~~L~~H~~~~~p~~C~--~C~ 201 (332)
|-... +..|++.+ -|.|..| +..|.....|..|-|. .=|.|. .|-
T Consensus 192 fld~~el~rH~~~~----h~~chfC~~~~~~neyy~~~~dLe~HfR~-~HflCE~~~C~ 245 (669)
T KOG2231|consen 192 FLDDDELYRHLRFD----HEFCHFCDYKTGQNEYYNDYDDLEEHFRK-GHFLCEEEFCR 245 (669)
T ss_pred hccHHHHHHhhccc----eeheeecCcccccchhcccchHHHHHhhh-cCccccccccc
Confidence 76333 34455544 4667666 4557777788888776 445565 455
No 56
>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=88.22 E-value=0.39 Score=28.24 Aligned_cols=23 Identities=22% Similarity=0.559 Sum_probs=15.8
Q ss_pred eecccccccccCcccccccccCCCCccCCCCC
Q 038715 170 LSMSSVGVMVSSNLDPILTSRVSKPYLSSVCG 201 (332)
Q Consensus 170 ~~C~~C~k~F~~~~~L~~H~~~~~p~~C~~C~ 201 (332)
|.|.+||..+.... .|..|++|+
T Consensus 2 ~~C~~CGy~y~~~~---------~~~~CP~Cg 24 (33)
T cd00350 2 YVCPVCGYIYDGEE---------APWVCPVCG 24 (33)
T ss_pred EECCCCCCEECCCc---------CCCcCcCCC
Confidence 67777876655432 677788887
No 57
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.13 E-value=0.61 Score=46.77 Aligned_cols=83 Identities=16% Similarity=0.295 Sum_probs=45.8
Q ss_pred eecccccccc---------------cChhHHHHHHHhcCCCcccccCccccCCCcceecCCCCCCCC--CCCCccCChhh
Q 038715 6 YICEVCHKGF---------------QRDQNLQLHRKGHNLPWKLMQRPTTQVKKGVYVCPKPNCVHH--HPSRALGDLTG 68 (332)
Q Consensus 6 ~~C~~C~k~f---------------~~~~~L~~H~~~h~~~~~l~~~~~~~~~~~~~~C~~C~C~~~--~~~~~f~~~~~ 68 (332)
+.|.+|++.| .....|+.|+..-+ +.+.|.+|-+-.. ......-....
T Consensus 100 ~~C~~C~~~~~~~~~~~~~~~c~~~~s~~~Lk~H~~~~H---------------~~~~c~lC~~~~kif~~e~k~Yt~~e 164 (669)
T KOG2231|consen 100 HSCHICDRRFRALYNKKECLHCTEFKSVENLKNHMRDQH---------------KLHLCSLCLQNLKIFINERKLYTRAE 164 (669)
T ss_pred hhcCccccchhhhcccCCCccccchhHHHHHHHHHHHhh---------------hhhccccccccceeeeeeeehehHHH
Confidence 4566776666 36788999984332 2334444422000 00122234455
Q ss_pred HhhhhccccC-CC----ccccccChhhhcCchhhHHHHHH
Q 038715 69 VKKHFCRKHG-EK----KWKCDKCSKCYAVQSDWKAHTKI 103 (332)
Q Consensus 69 L~~H~~~h~~-ek----~~~C~~C~~~f~~~~~L~~H~~~ 103 (332)
|..|+..-.. ++ --.|..|...|.....|.+|++.
T Consensus 165 l~~h~~~gd~d~~s~rGhp~C~~C~~~fld~~el~rH~~~ 204 (669)
T KOG2231|consen 165 LNLHLMFGDPDDESCRGHPLCKFCHERFLDDDELYRHLRF 204 (669)
T ss_pred HHHHHhcCCCccccccCCccchhhhhhhccHHHHHHhhcc
Confidence 6666543211 21 14677888888888888888887
No 58
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=86.27 E-value=0.13 Score=44.37 Aligned_cols=29 Identities=10% Similarity=0.087 Sum_probs=22.7
Q ss_pred cccccccccCcccccccccCCCCccCCCCC
Q 038715 172 MSSVGVMVSSNLDPILTSRVSKPYLSSVCG 201 (332)
Q Consensus 172 C~~C~k~F~~~~~L~~H~~~~~p~~C~~C~ 201 (332)
|..|++.|.....|..|++. +-|+|.+|.
T Consensus 13 cwycnrefddekiliqhqka-khfkchich 41 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQKA-KHFKCHICH 41 (341)
T ss_pred eeecccccchhhhhhhhhhh-ccceeeeeh
Confidence 77788888887788877776 677788887
No 59
>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=85.10 E-value=0.75 Score=27.05 Aligned_cols=23 Identities=13% Similarity=0.368 Sum_probs=18.1
Q ss_pred CCccCCCCCCCcccccccccccChhHHHHHHH
Q 038715 193 KPYLSSVCGSNACAMAIGSSFTSSTALLQKAA 224 (332)
Q Consensus 193 ~p~~C~~C~~~~~~~~~~~~f~~~~~L~~H~~ 224 (332)
.+|.|++|+ +.|.+..++..|..
T Consensus 2 ~~~~C~~C~---------~~~~~~~~~~~H~~ 24 (35)
T smart00451 2 GGFYCKLCN---------VTFTDEISVEAHLK 24 (35)
T ss_pred cCeEccccC---------CccCCHHHHHHHHC
Confidence 367888888 88888888888754
No 60
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=84.92 E-value=0.23 Score=41.93 Aligned_cols=74 Identities=19% Similarity=0.460 Sum_probs=57.9
Q ss_pred CcceecCCCCCCCCCCCCccCChhhHhhhhccccCCCccccccChhhhcCchhhHHHHHH-h----------CCCCeee-
Q 038715 44 KGVYVCPKPNCVHHHPSRALGDLTGVKKHFCRKHGEKKWKCDKCSKCYAVQSDWKAHTKI-C----------GTREHRC- 111 (332)
Q Consensus 44 ~~~~~C~~C~C~~~~~~~~f~~~~~L~~H~~~h~~ek~~~C~~C~~~f~~~~~L~~H~~~-h----------~~k~~~C- 111 (332)
...+.|+.-|| .+.|........|..+-++ -.|..|.+.|.+...|..|+.- | |..-|.|
T Consensus 77 ~~~~~cqvagc-----~~~~d~lD~~E~hY~~~h~---~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~Cl 148 (253)
T KOG4173|consen 77 VPAFACQVAGC-----CQVFDALDDYEHHYHTLHG---NSCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCL 148 (253)
T ss_pred cccccccccch-----HHHHhhhhhHHHhhhhccc---chhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHH
Confidence 45688998877 7888887777777655444 3899999999999999999887 6 4445889
Q ss_pred -e-cCCccccchhHhh
Q 038715 112 -D-CGIIFSSQNLAAS 125 (332)
Q Consensus 112 -~-C~k~f~~~~~l~~ 125 (332)
+ |+..|.+......
T Consensus 149 vEgCt~KFkT~r~Rkd 164 (253)
T KOG4173|consen 149 VEGCTEKFKTSRDRKD 164 (253)
T ss_pred HHhhhhhhhhhhhhhh
Confidence 6 9999998666554
No 61
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=84.86 E-value=0.5 Score=31.06 Aligned_cols=27 Identities=19% Similarity=0.316 Sum_probs=23.6
Q ss_pred CCCceecccccccccChhHHHHHHHhc
Q 038715 2 ATNRYICEVCHKGFQRDQNLQLHRKGH 28 (332)
Q Consensus 2 ~~k~~~C~~C~k~f~~~~~L~~H~~~h 28 (332)
||.-++|+.||..|....++.+|....
T Consensus 14 GE~~lrCPRC~~~FR~~K~Y~RHVNKa 40 (65)
T COG4049 14 GEEFLRCPRCGMVFRRRKDYIRHVNKA 40 (65)
T ss_pred CceeeeCCchhHHHHHhHHHHHHhhHH
Confidence 567799999999999999999997643
No 62
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=84.19 E-value=0.54 Score=50.16 Aligned_cols=54 Identities=17% Similarity=0.174 Sum_probs=46.9
Q ss_pred ccCCCCceecccccccccCcccccccccC----------------------------CCCccCCCCCCCccccccccccc
Q 038715 163 IENSLRPLSMSSVGVMVSSNLDPILTSRV----------------------------SKPYLSSVCGSNACAMAIGSSFT 214 (332)
Q Consensus 163 ~h~~~k~~~C~~C~k~F~~~~~L~~H~~~----------------------------~~p~~C~~C~~~~~~~~~~~~f~ 214 (332)
+++-.|.|.|+.|+..|+....|..|||+ .+||.|..|. .+++
T Consensus 459 L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C~---------~stt 529 (1406)
T KOG1146|consen 459 LHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRACN---------YSTT 529 (1406)
T ss_pred eecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceeee---------eeee
Confidence 45556889999999999999999999986 4689999999 9999
Q ss_pred ChhHHHHHHHH
Q 038715 215 SSTALLQKAAE 225 (332)
Q Consensus 215 ~~~~L~~H~~~ 225 (332)
.+.+|..|+..
T Consensus 530 tng~LsihlqS 540 (1406)
T KOG1146|consen 530 TNGNLSIHLQS 540 (1406)
T ss_pred cchHHHHHHHH
Confidence 99999998653
No 63
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=81.02 E-value=0.79 Score=39.80 Aligned_cols=37 Identities=16% Similarity=0.257 Sum_probs=23.8
Q ss_pred CCceecccccccccCcccccccccC-------------CCC-----ccCCCCCCC
Q 038715 167 LRPLSMSSVGVMVSSNLDPILTSRV-------------SKP-----YLSSVCGSN 203 (332)
Q Consensus 167 ~k~~~C~~C~k~F~~~~~L~~H~~~-------------~~p-----~~C~~C~~~ 203 (332)
++.+.|++|++.|.++.-+....++ ..| ..||.||.+
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA 57 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYA 57 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCc
Confidence 3567788888888777555545443 222 479999933
No 64
>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=80.81 E-value=1.3 Score=26.18 Aligned_cols=24 Identities=17% Similarity=0.332 Sum_probs=16.4
Q ss_pred ceecccccccccCcccccccccCCCCccCCCCC
Q 038715 169 PLSMSSVGVMVSSNLDPILTSRVSKPYLSSVCG 201 (332)
Q Consensus 169 ~~~C~~C~k~F~~~~~L~~H~~~~~p~~C~~C~ 201 (332)
.|.|.+||..+.... .|..|++|+
T Consensus 2 ~~~C~~CG~i~~g~~---------~p~~CP~Cg 25 (34)
T cd00729 2 VWVCPVCGYIHEGEE---------APEKCPICG 25 (34)
T ss_pred eEECCCCCCEeECCc---------CCCcCcCCC
Confidence 477888887655432 466788888
No 65
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=80.05 E-value=3.1 Score=31.93 Aligned_cols=21 Identities=14% Similarity=0.302 Sum_probs=15.3
Q ss_pred CCccccccChhhhcCchhhHH
Q 038715 79 EKKWKCDKCSKCYAVQSDWKA 99 (332)
Q Consensus 79 ek~~~C~~C~~~f~~~~~L~~ 99 (332)
+-|..|+.|+........|.+
T Consensus 13 ~LP~~CpiCgLtLVss~HLAR 33 (112)
T TIGR00622 13 ELPVECPICGLTLILSTHLAR 33 (112)
T ss_pred CCCCcCCcCCCEEeccchHHH
Confidence 356788888888777776664
No 66
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=77.50 E-value=1.5 Score=26.46 Aligned_cols=33 Identities=15% Similarity=0.223 Sum_probs=18.6
Q ss_pred cCCCCcccccCCCCcccccccCCCCceeccccccccc
Q 038715 144 TDSDSNTNIRMNPSISRDNIENSLRPLSMSSVGVMVS 180 (332)
Q Consensus 144 ~c~~c~~~f~~~~~~~h~~~h~~~k~~~C~~C~k~F~ 180 (332)
.|+.|+..|..... ++-.+.+..+|+.|+..|.
T Consensus 4 ~CP~C~~~f~v~~~----~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 4 TCPNCQTRFRVPDD----KLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred ECCCCCceEEcCHH----HcccCCcEEECCCCCcEee
Confidence 46666666654432 1233444677777776664
No 67
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=77.17 E-value=0.87 Score=39.39 Aligned_cols=46 Identities=22% Similarity=0.240 Sum_probs=36.9
Q ss_pred ecCCCCCCCCCCCCccCChhhHhhhhccccCCCccccccChhhhcCchhhHHHHHH-h
Q 038715 48 VCPKPNCVHHHPSRALGDLTGVKKHFCRKHGEKKWKCDKCSKCYAVQSDWKAHTKI-C 104 (332)
Q Consensus 48 ~C~~C~C~~~~~~~~f~~~~~L~~H~~~h~~ek~~~C~~C~~~f~~~~~L~~H~~~-h 104 (332)
-|-+| ++.|....-|.+|++.. .|+|.+|.+..-+-..|..|.-. |
T Consensus 12 wcwyc-------nrefddekiliqhqkak----hfkchichkkl~sgpglsihcmqvh 58 (341)
T KOG2893|consen 12 WCWYC-------NREFDDEKILIQHQKAK----HFKCHICHKKLFSGPGLSIHCMQVH 58 (341)
T ss_pred eeeec-------ccccchhhhhhhhhhhc----cceeeeehhhhccCCCceeehhhhh
Confidence 37778 99999999999998654 49999999888777778777655 5
No 68
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=76.88 E-value=0.97 Score=41.91 Aligned_cols=136 Identities=13% Similarity=0.124 Sum_probs=0.0
Q ss_pred eecCCCCCCCCCCCCccCChhhHhhhhcc-------------------------------------ccCCCccccccChh
Q 038715 47 YVCPKPNCVHHHPSRALGDLTGVKKHFCR-------------------------------------KHGEKKWKCDKCSK 89 (332)
Q Consensus 47 ~~C~~C~C~~~~~~~~f~~~~~L~~H~~~-------------------------------------h~~ek~~~C~~C~~ 89 (332)
|.|.-| ...|.....-+.|+++ -.++-++.|..|.+
T Consensus 4 ftC~tC-------~v~F~~ad~Qr~HyKSdWHRYNLKRkVA~lPPItaE~F~~k~~s~~~~~~~~~e~~~~~~~c~~c~k 76 (390)
T KOG2785|consen 4 FTCNTC-------NVEFDDADEQRAHYKSDWHRYNLKRKVASLPPITAEEFNEKVLSDDSEKEENLEEAESVVYCEACNK 76 (390)
T ss_pred ceeece-------eeeeccHHHHHHHhhhhHHHhhHHhHhhcCCCcCHHHHhHHHhhhhhhhhhhhhhcccceehHHhhc
Q ss_pred hhcCchhhHHHHHH--h---CCCCee--------------------------ee-cCCccccchhHhhcCCccchhhhhc
Q 038715 90 CYAVQSDWKAHTKI--C---GTREHR--------------------------CD-CGIIFSSQNLAASGGMAQSQAQELF 137 (332)
Q Consensus 90 ~f~~~~~L~~H~~~--h---~~k~~~--------------------------C~-C~k~f~~~~~l~~h~~~~~~~~~~~ 137 (332)
.|........|+.. | ..+-++ +. +-..+............ .....+-
T Consensus 77 ~~~s~~a~~~hl~Sk~h~~~~~~~~r~~e~d~a~~~q~~~~~p~~l~~~~e~e~~~~E~~~~~d~~~e~~~d-d~~Edi~ 155 (390)
T KOG2785|consen 77 SFASPKAHENHLKSKKHVENLSNHQRSEEGDSAKISQLPSRRPSNLQNKGESELKWYEVDSDEDSSEEEEED-DEEEDIE 155 (390)
T ss_pred cccChhhHHHHHHHhhcchhhhhhhccccccchhhhhccccCccccccCCCcccchhhcccccccchhhccC-cchhhhh
Q ss_pred cCC------CCccCCCCccccc-CCCCcccccccCC-----------------------CCceeccccc---ccccCccc
Q 038715 138 SSS------MPSTDSDSNTNIR-MNPSISRDNIENS-----------------------LRPLSMSSVG---VMVSSNLD 184 (332)
Q Consensus 138 ~~~------~~~~c~~c~~~f~-~~~~~~h~~~h~~-----------------------~k~~~C~~C~---k~F~~~~~ 184 (332)
... .|-.|-.|++.+. ....+.|+..+.+ -.-|.|-.|+ +.|.+-.+
T Consensus 156 ~d~~~e~e~~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~slea 235 (390)
T KOG2785|consen 156 EDGDDEDELIPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEA 235 (390)
T ss_pred hccchhcccCCcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHH
Q ss_pred cccccc
Q 038715 185 PILTSR 190 (332)
Q Consensus 185 L~~H~~ 190 (332)
.+.||+
T Consensus 236 vr~HM~ 241 (390)
T KOG2785|consen 236 VRAHMR 241 (390)
T ss_pred HHHHHh
No 69
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=76.77 E-value=1.7 Score=26.08 Aligned_cols=32 Identities=16% Similarity=0.215 Sum_probs=17.0
Q ss_pred cCCCCcccccCCCCcccccccCCCCceecccccccc
Q 038715 144 TDSDSNTNIRMNPSISRDNIENSLRPLSMSSVGVMV 179 (332)
Q Consensus 144 ~c~~c~~~f~~~~~~~h~~~h~~~k~~~C~~C~k~F 179 (332)
.|+.|+..|..... ++-...+..+|+.|+..|
T Consensus 4 ~Cp~C~~~y~i~d~----~ip~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 4 TCPNCQAKYEIDDE----KIPPKGRKVRCSKCGHVF 35 (36)
T ss_pred ECCCCCCEEeCCHH----HCCCCCcEEECCCCCCEe
Confidence 45556655554432 122333456777777665
No 70
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=76.74 E-value=1.7 Score=27.05 Aligned_cols=28 Identities=14% Similarity=0.143 Sum_probs=16.3
Q ss_pred eecccccccccCcccccccccCCCCccCCCCC
Q 038715 170 LSMSSVGVMVSSNLDPILTSRVSKPYLSSVCG 201 (332)
Q Consensus 170 ~~C~~C~k~F~~~~~L~~H~~~~~p~~C~~C~ 201 (332)
|.|..||..|........ ..+-.|+.|+
T Consensus 6 y~C~~Cg~~fe~~~~~~~----~~~~~CP~Cg 33 (42)
T PF09723_consen 6 YRCEECGHEFEVLQSISE----DDPVPCPECG 33 (42)
T ss_pred EEeCCCCCEEEEEEEcCC----CCCCcCCCCC
Confidence 667777766655443332 3455677776
No 71
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=75.79 E-value=1.7 Score=39.72 Aligned_cols=91 Identities=19% Similarity=0.333 Sum_probs=52.6
Q ss_pred ceeccc--ccccccChhHHHHHHHhcCCCcccccCccccCCCcceecCCCCCCCC---CCCCccCChhhHhhhhccccCC
Q 038715 5 RYICEV--CHKGFQRDQNLQLHRKGHNLPWKLMQRPTTQVKKGVYVCPKPNCVHH---HPSRALGDLTGVKKHFCRKHGE 79 (332)
Q Consensus 5 ~~~C~~--C~k~f~~~~~L~~H~~~h~~~~~l~~~~~~~~~~~~~~C~~C~C~~~---~~~~~f~~~~~L~~H~~~h~~e 79 (332)
.|.|+. |..+......|..|.+..+ ..+.|..|-- +. .+.-..-+...|..|...-..+
T Consensus 151 ~F~CP~skc~~~C~~~k~lk~H~K~~H---------------~~~~C~~C~~-nKk~F~~E~~lF~~~~Lr~H~~~G~~e 214 (493)
T COG5236 151 SFKCPKSKCHRRCGSLKELKKHYKAQH---------------GFVLCSECIG-NKKDFWNEIRLFRSSTLRDHKNGGLEE 214 (493)
T ss_pred HhcCCchhhhhhhhhHHHHHHHHHhhc---------------CcEEhHhhhc-CcccCccceeeeecccccccccCCccc
Confidence 367763 6666666778888877643 2345555510 00 0011222344566665443333
Q ss_pred Cc----cccccChhhhcCchhhHHHHHH-hCCCCeeee
Q 038715 80 KK----WKCDKCSKCYAVQSDWKAHTKI-CGTREHRCD 112 (332)
Q Consensus 80 k~----~~C~~C~~~f~~~~~L~~H~~~-h~~k~~~C~ 112 (332)
.- -.|..|...|-....|.+|++. | ++-|.|+
T Consensus 215 ~GFKGHP~C~FC~~~FYdDDEL~~HcR~~H-E~ChICD 251 (493)
T COG5236 215 EGFKGHPLCIFCKIYFYDDDELRRHCRLRH-EACHICD 251 (493)
T ss_pred cCcCCCchhhhccceecChHHHHHHHHhhh-hhhhhhh
Confidence 22 3588888888888999999888 5 5555554
No 72
>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=75.71 E-value=2 Score=26.24 Aligned_cols=28 Identities=11% Similarity=0.017 Sum_probs=14.9
Q ss_pred eecccccccccCcccccccccCCCCccCCCCC
Q 038715 170 LSMSSVGVMVSSNLDPILTSRVSKPYLSSVCG 201 (332)
Q Consensus 170 ~~C~~C~k~F~~~~~L~~H~~~~~p~~C~~C~ 201 (332)
|+|..||..|........ ...-.|+.||
T Consensus 6 y~C~~Cg~~fe~~~~~~~----~~~~~CP~Cg 33 (41)
T smart00834 6 YRCEDCGHTFEVLQKISD----DPLATCPECG 33 (41)
T ss_pred EEcCCCCCEEEEEEecCC----CCCCCCCCCC
Confidence 566666666654332211 3344566666
No 73
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=75.68 E-value=2.5 Score=38.70 Aligned_cols=24 Identities=29% Similarity=0.551 Sum_probs=21.6
Q ss_pred ceecccccccccChhHHHHHHHhc
Q 038715 5 RYICEVCHKGFQRDQNLQLHRKGH 28 (332)
Q Consensus 5 ~~~C~~C~k~f~~~~~L~~H~~~h 28 (332)
.++|-.|.+.|..+..|+.||+.-
T Consensus 195 r~~CLyCekifrdkntLkeHMrkK 218 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRKK 218 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHhc
Confidence 578999999999999999999753
No 74
>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=75.01 E-value=2 Score=27.91 Aligned_cols=29 Identities=10% Similarity=0.022 Sum_probs=18.2
Q ss_pred ceecccccccccCcccccccccCCCCccCCCCC
Q 038715 169 PLSMSSVGVMVSSNLDPILTSRVSKPYLSSVCG 201 (332)
Q Consensus 169 ~~~C~~C~k~F~~~~~L~~H~~~~~p~~C~~C~ 201 (332)
-|.|..|+..|........ ..+-.|+.|+
T Consensus 5 ey~C~~Cg~~fe~~~~~~~----~~~~~CP~Cg 33 (52)
T TIGR02605 5 EYRCTACGHRFEVLQKMSD----DPLATCPECG 33 (52)
T ss_pred EEEeCCCCCEeEEEEecCC----CCCCCCCCCC
Confidence 3778888887774432221 3455688888
No 75
>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=73.71 E-value=2 Score=25.90 Aligned_cols=12 Identities=8% Similarity=0.066 Sum_probs=7.0
Q ss_pred ceeccccccccc
Q 038715 169 PLSMSSVGVMVS 180 (332)
Q Consensus 169 ~~~C~~C~k~F~ 180 (332)
...|+.|+..|.
T Consensus 25 ~v~C~~C~~~~~ 36 (38)
T TIGR02098 25 KVRCGKCGHVWY 36 (38)
T ss_pred EEECCCCCCEEE
Confidence 456666666553
No 76
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=73.38 E-value=1.8 Score=35.43 Aligned_cols=19 Identities=11% Similarity=-0.088 Sum_probs=13.5
Q ss_pred ceecccccccccCcccccc
Q 038715 169 PLSMSSVGVMVSSNLDPIL 187 (332)
Q Consensus 169 ~~~C~~C~k~F~~~~~L~~ 187 (332)
.++|+.||++|.+...+..
T Consensus 28 ~~~c~~c~~~f~~~e~~~~ 46 (154)
T PRK00464 28 RRECLACGKRFTTFERVEL 46 (154)
T ss_pred eeeccccCCcceEeEeccC
Confidence 4888888888887665443
No 77
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=70.62 E-value=2.1 Score=36.34 Aligned_cols=78 Identities=19% Similarity=0.407 Sum_probs=58.7
Q ss_pred Cceeccc--ccccccChhHHHHHHHhcCCCcccccCccccCCCcceecCCCCCCCCCCCCccCChhhHhhhhcc------
Q 038715 4 NRYICEV--CHKGFQRDQNLQLHRKGHNLPWKLMQRPTTQVKKGVYVCPKPNCVHHHPSRALGDLTGVKKHFCR------ 75 (332)
Q Consensus 4 k~~~C~~--C~k~f~~~~~L~~H~~~h~~~~~l~~~~~~~~~~~~~~C~~C~C~~~~~~~~f~~~~~L~~H~~~------ 75 (332)
..|.|.+ |-..|....++..|-.+-+ + -.|..| .+.|.+...|..|+.-
T Consensus 78 ~~~~cqvagc~~~~d~lD~~E~hY~~~h-------------~---~sCs~C-------~r~~Pt~hLLd~HI~E~HDs~F 134 (253)
T KOG4173|consen 78 PAFACQVAGCCQVFDALDDYEHHYHTLH-------------G---NSCSFC-------KRAFPTGHLLDAHILEWHDSLF 134 (253)
T ss_pred ccccccccchHHHHhhhhhHHHhhhhcc-------------c---chhHHH-------HHhCCchhhhhHHHHHHHHHHH
Confidence 3466765 6677777777777654332 2 269999 9999999999988642
Q ss_pred ----ccCCCcccc--ccChhhhcCchhhHHHHHH-h
Q 038715 76 ----KHGEKKWKC--DKCSKCYAVQSDWKAHTKI-C 104 (332)
Q Consensus 76 ----h~~ek~~~C--~~C~~~f~~~~~L~~H~~~-h 104 (332)
-.|...|.| ..|+..|.+...-+.|+.. |
T Consensus 135 qa~veRG~dMy~ClvEgCt~KFkT~r~RkdH~I~~H 170 (253)
T KOG4173|consen 135 QALVERGQDMYQCLVEGCTEKFKTSRDRKDHMIRMH 170 (253)
T ss_pred HHHHHcCccHHHHHHHhhhhhhhhhhhhhhHHHHhc
Confidence 335567999 6699999999999999998 7
No 78
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=68.08 E-value=2.3 Score=34.56 Aligned_cols=32 Identities=9% Similarity=0.050 Sum_probs=18.7
Q ss_pred CceecccccccccCcccccc-cccCCCCccCCCCC
Q 038715 168 RPLSMSSVGVMVSSNLDPIL-TSRVSKPYLSSVCG 201 (332)
Q Consensus 168 k~~~C~~C~k~F~~~~~L~~-H~~~~~p~~C~~C~ 201 (332)
.-|.|+.|+..|.....+.. +. ...|.|+.||
T Consensus 98 ~~Y~Cp~C~~~y~~~ea~~~~d~--~~~f~Cp~Cg 130 (147)
T smart00531 98 AYYKCPNCQSKYTFLEANQLLDM--DGTFTCPRCG 130 (147)
T ss_pred cEEECcCCCCEeeHHHHHHhcCC--CCcEECCCCC
Confidence 35777777777775444332 22 2337777777
No 79
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=67.97 E-value=3.5 Score=22.82 Aligned_cols=10 Identities=10% Similarity=-0.021 Sum_probs=5.9
Q ss_pred eccccccccc
Q 038715 171 SMSSVGVMVS 180 (332)
Q Consensus 171 ~C~~C~k~F~ 180 (332)
.|+.||..|.
T Consensus 16 ~Cp~CG~~F~ 25 (26)
T PF10571_consen 16 FCPHCGYDFE 25 (26)
T ss_pred cCCCCCCCCc
Confidence 4666666653
No 80
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=67.78 E-value=4.2 Score=25.74 Aligned_cols=11 Identities=18% Similarity=0.193 Sum_probs=5.4
Q ss_pred eeccccccccc
Q 038715 170 LSMSSVGVMVS 180 (332)
Q Consensus 170 ~~C~~C~k~F~ 180 (332)
|.|+.||..|.
T Consensus 4 y~C~~CG~~~~ 14 (46)
T PRK00398 4 YKCARCGREVE 14 (46)
T ss_pred EECCCCCCEEE
Confidence 45555554443
No 81
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=67.68 E-value=4 Score=37.46 Aligned_cols=56 Identities=13% Similarity=0.097 Sum_probs=41.6
Q ss_pred CCceecc--cccccccCcccccccccC----------------------CCCccCCCCCCCcccccccccccChhHHHHH
Q 038715 167 LRPLSMS--SVGVMVSSNLDPILTSRV----------------------SKPYLSSVCGSNACAMAIGSSFTSSTALLQK 222 (332)
Q Consensus 167 ~k~~~C~--~C~k~F~~~~~L~~H~~~----------------------~~p~~C~~C~~~~~~~~~~~~f~~~~~L~~H 222 (332)
.++|+|+ .|.+.++....|+.|... .|||.|++|.+++...++++.....+.|..-
T Consensus 347 ~~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~~~~~~~~~s 426 (442)
T KOG4124|consen 347 DKPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLKYHRTHSHLQVS 426 (442)
T ss_pred cCCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCCceeehhhhhhh
Confidence 5689995 599999998888877543 6899999999777776666655555544433
No 82
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=66.36 E-value=3.5 Score=27.18 Aligned_cols=28 Identities=21% Similarity=0.621 Sum_probs=17.8
Q ss_pred ccCCCccccccChhhhcCchhhHHHHHH
Q 038715 76 KHGEKKWKCDKCSKCYAVQSDWKAHTKI 103 (332)
Q Consensus 76 h~~ek~~~C~~C~~~f~~~~~L~~H~~~ 103 (332)
..||--+.|+-|+..|....+..+|...
T Consensus 12 RDGE~~lrCPRC~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 12 RDGEEFLRCPRCGMVFRRRKDYIRHVNK 39 (65)
T ss_pred cCCceeeeCCchhHHHHHhHHHHHHhhH
Confidence 3455556677777777666666666655
No 83
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=65.78 E-value=5.1 Score=25.26 Aligned_cols=24 Identities=13% Similarity=0.115 Sum_probs=12.9
Q ss_pred eecccccccccCcccccccccCCCCccCCCCC
Q 038715 170 LSMSSVGVMVSSNLDPILTSRVSKPYLSSVCG 201 (332)
Q Consensus 170 ~~C~~C~k~F~~~~~L~~H~~~~~p~~C~~C~ 201 (332)
|.|..||..|.-. ...+.+|+.||
T Consensus 3 Y~C~~Cg~~~~~~--------~~~~irC~~CG 26 (44)
T smart00659 3 YICGECGRENEIK--------SKDVVRCRECG 26 (44)
T ss_pred EECCCCCCEeecC--------CCCceECCCCC
Confidence 5666666655533 12345566666
No 84
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=65.31 E-value=6.3 Score=25.61 Aligned_cols=32 Identities=13% Similarity=0.193 Sum_probs=16.9
Q ss_pred eecccccccccCccccccc-ccC-------CCCccCCCCC
Q 038715 170 LSMSSVGVMVSSNLDPILT-SRV-------SKPYLSSVCG 201 (332)
Q Consensus 170 ~~C~~C~k~F~~~~~L~~H-~~~-------~~p~~C~~C~ 201 (332)
|+|..||..|.-..--..+ +.- .--+.|++|+
T Consensus 2 y~C~~CgyiYd~~~Gd~~~~i~pGt~f~~Lp~~w~CP~C~ 41 (50)
T cd00730 2 YECRICGYIYDPAEGDPDEGIPPGTPFEDLPDDWVCPVCG 41 (50)
T ss_pred cCCCCCCeEECCCCCCcccCcCCCCCHhHCCCCCCCCCCC
Confidence 6677777777643221111 111 3346788877
No 85
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=65.25 E-value=2.3 Score=37.31 Aligned_cols=47 Identities=6% Similarity=-0.065 Sum_probs=36.1
Q ss_pred ccCCCCcccccCCCCcccccccCCCCceecccccccccCcccccccccC
Q 038715 143 STDSDSNTNIRMNPSISRDNIENSLRPLSMSSVGVMVSSNLDPILTSRV 191 (332)
Q Consensus 143 ~~c~~c~~~f~~~~~~~h~~~h~~~k~~~C~~C~k~F~~~~~L~~H~~~ 191 (332)
|.|..||.........+|+..-.+ .-|.|-.|++.|.+ .+...|..-
T Consensus 4 FtCnvCgEsvKKp~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~kC 50 (276)
T KOG2186|consen 4 FTCNVCGESVKKPQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTKC 50 (276)
T ss_pred EehhhhhhhccccchHHHHHhccC-CeeEEeeccccccc-chhhhhhhh
Confidence 678888888876666668776666 57899999999988 677788554
No 86
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=64.50 E-value=6.9 Score=25.08 Aligned_cols=32 Identities=13% Similarity=0.262 Sum_probs=16.4
Q ss_pred eecccccccccCccccccccc---C-----CCCccCCCCC
Q 038715 170 LSMSSVGVMVSSNLDPILTSR---V-----SKPYLSSVCG 201 (332)
Q Consensus 170 ~~C~~C~k~F~~~~~L~~H~~---~-----~~p~~C~~C~ 201 (332)
|+|.+|+..|.-...-..+-- + ..-|.|++|+
T Consensus 2 y~C~~CgyvYd~~~Gd~~~~i~pGt~F~~Lp~~w~CP~C~ 41 (47)
T PF00301_consen 2 YQCPVCGYVYDPEKGDPENGIPPGTPFEDLPDDWVCPVCG 41 (47)
T ss_dssp EEETTTSBEEETTTBBGGGTB-TT--GGGS-TT-B-TTTS
T ss_pred cCCCCCCEEEcCCcCCcccCcCCCCCHHHCCCCCcCcCCC
Confidence 677777777765543222211 0 3447888887
No 87
>PHA00626 hypothetical protein
Probab=64.30 E-value=5.4 Score=26.38 Aligned_cols=12 Identities=17% Similarity=0.019 Sum_probs=5.9
Q ss_pred ceeccccccccc
Q 038715 169 PLSMSSVGVMVS 180 (332)
Q Consensus 169 ~~~C~~C~k~F~ 180 (332)
.|+|+.||..|+
T Consensus 23 rYkCkdCGY~ft 34 (59)
T PHA00626 23 DYVCCDCGYNDS 34 (59)
T ss_pred ceEcCCCCCeec
Confidence 455555554444
No 88
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=63.91 E-value=18 Score=27.77 Aligned_cols=19 Identities=21% Similarity=0.436 Sum_probs=14.4
Q ss_pred CCCeeee-cCCccccchhHh
Q 038715 106 TREHRCD-CGIIFSSQNLAA 124 (332)
Q Consensus 106 ~k~~~C~-C~k~f~~~~~l~ 124 (332)
+-|..|. |+-.......|+
T Consensus 13 ~LP~~CpiCgLtLVss~HLA 32 (112)
T TIGR00622 13 ELPVECPICGLTLILSTHLA 32 (112)
T ss_pred CCCCcCCcCCCEEeccchHH
Confidence 4577888 988888776666
No 89
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=63.57 E-value=3.9 Score=27.42 Aligned_cols=31 Identities=16% Similarity=0.387 Sum_probs=17.1
Q ss_pred ceecccccccccCcccccccccCCCCccCCCCC
Q 038715 169 PLSMSSVGVMVSSNLDPILTSRVSKPYLSSVCG 201 (332)
Q Consensus 169 ~~~C~~C~k~F~~~~~L~~H~~~~~p~~C~~C~ 201 (332)
.|.|+.||..-..+..- =.+...+|+|+.||
T Consensus 27 ~F~CPnCGe~~I~Rc~~--CRk~g~~Y~Cp~CG 57 (61)
T COG2888 27 KFPCPNCGEVEIYRCAK--CRKLGNPYRCPKCG 57 (61)
T ss_pred EeeCCCCCceeeehhhh--HHHcCCceECCCcC
Confidence 57777777554333211 11125678888777
No 90
>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=62.53 E-value=3 Score=34.37 Aligned_cols=31 Identities=13% Similarity=0.073 Sum_probs=24.2
Q ss_pred CCCCceecccccccccCcccccccccCCCCccCCCCC
Q 038715 165 NSLRPLSMSSVGVMVSSNLDPILTSRVSKPYLSSVCG 201 (332)
Q Consensus 165 ~~~k~~~C~~C~k~F~~~~~L~~H~~~~~p~~C~~C~ 201 (332)
....-|.|+.|+..|+.-.++. .-|.|+.||
T Consensus 105 ~~~~~Y~Cp~c~~r~tf~eA~~------~~F~Cp~Cg 135 (158)
T TIGR00373 105 TNNMFFICPNMCVRFTFNEAME------LNFTCPRCG 135 (158)
T ss_pred cCCCeEECCCCCcEeeHHHHHH------cCCcCCCCC
Confidence 3444688999998888887775 369999999
No 91
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=61.98 E-value=3.2 Score=34.91 Aligned_cols=29 Identities=7% Similarity=0.005 Sum_probs=24.0
Q ss_pred CCceecccccccccCcccccccccCCCCccCCCCC
Q 038715 167 LRPLSMSSVGVMVSSNLDPILTSRVSKPYLSSVCG 201 (332)
Q Consensus 167 ~k~~~C~~C~k~F~~~~~L~~H~~~~~p~~C~~C~ 201 (332)
..-|.|+.|++.|+.-..+. .-|.|+.||
T Consensus 115 ~~~Y~Cp~C~~rytf~eA~~------~~F~Cp~Cg 143 (178)
T PRK06266 115 NMFFFCPNCHIRFTFDEAME------YGFRCPQCG 143 (178)
T ss_pred CCEEECCCCCcEEeHHHHhh------cCCcCCCCC
Confidence 34689999999998887763 479999999
No 92
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=61.28 E-value=6.2 Score=28.71 Aligned_cols=13 Identities=8% Similarity=0.072 Sum_probs=7.5
Q ss_pred ceecccccccccC
Q 038715 169 PLSMSSVGVMVSS 181 (332)
Q Consensus 169 ~~~C~~C~k~F~~ 181 (332)
.+.|..|+..|.-
T Consensus 53 IW~C~kCg~~fAG 65 (89)
T COG1997 53 IWKCRKCGAKFAG 65 (89)
T ss_pred eEEcCCCCCeecc
Confidence 4566666666553
No 93
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=61.11 E-value=7.1 Score=35.81 Aligned_cols=24 Identities=17% Similarity=0.260 Sum_probs=21.2
Q ss_pred cceecCCCCCCCCCCCCccCChhhHhhhhcc
Q 038715 45 GVYVCPKPNCVHHHPSRALGDLTGVKKHFCR 75 (332)
Q Consensus 45 ~~~~C~~C~C~~~~~~~~f~~~~~L~~H~~~ 75 (332)
..+.|-.| .+.|+.+..|+.||+.
T Consensus 194 ~r~~CLyC-------ekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 194 ERLRCLYC-------EKIFRDKNTLKEHMRK 217 (423)
T ss_pred hhheeeee-------ccccCCcHHHHHHHHh
Confidence 35789999 9999999999999975
No 94
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=60.14 E-value=7.3 Score=22.74 Aligned_cols=11 Identities=18% Similarity=0.190 Sum_probs=5.4
Q ss_pred eeccccccccc
Q 038715 170 LSMSSVGVMVS 180 (332)
Q Consensus 170 ~~C~~C~k~F~ 180 (332)
|.|..|+..+.
T Consensus 1 Y~C~~Cg~~~~ 11 (32)
T PF03604_consen 1 YICGECGAEVE 11 (32)
T ss_dssp EBESSSSSSE-
T ss_pred CCCCcCCCeeE
Confidence 45555555554
No 95
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=59.52 E-value=5.7 Score=29.07 Aligned_cols=27 Identities=22% Similarity=0.465 Sum_probs=20.4
Q ss_pred CceecccccccccCcccccccccCCCCccCCCCC
Q 038715 168 RPLSMSSVGVMVSSNLDPILTSRVSKPYLSSVCG 201 (332)
Q Consensus 168 k~~~C~~C~k~F~~~~~L~~H~~~~~p~~C~~C~ 201 (332)
+|-.|..||..|.. .++.+|-.|+.|.
T Consensus 57 ~Pa~CkkCGfef~~-------~~ik~pSRCP~CK 83 (97)
T COG3357 57 RPARCKKCGFEFRD-------DKIKKPSRCPKCK 83 (97)
T ss_pred cChhhcccCccccc-------cccCCcccCCcch
Confidence 47789999998876 1235688888887
No 96
>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=59.46 E-value=8.9 Score=23.87 Aligned_cols=24 Identities=29% Similarity=0.506 Sum_probs=16.4
Q ss_pred CCceecccccccccCh----hHHHHHHH
Q 038715 3 TNRYICEVCHKGFQRD----QNLQLHRK 26 (332)
Q Consensus 3 ~k~~~C~~C~k~f~~~----~~L~~H~~ 26 (332)
....+|..|++.+... .+|.+|++
T Consensus 14 ~~~a~C~~C~~~~~~~~~~ts~l~~HL~ 41 (45)
T PF02892_consen 14 KKKAKCKYCGKVIKYSSGGTSNLKRHLK 41 (45)
T ss_dssp SS-EEETTTTEE-----SSTHHHHHHHH
T ss_pred cCeEEeCCCCeEEeeCCCcHHHHHHhhh
Confidence 5678899999998874 78999984
No 97
>PF14353 CpXC: CpXC protein
Probab=57.96 E-value=5.6 Score=31.31 Aligned_cols=23 Identities=9% Similarity=0.070 Sum_probs=16.7
Q ss_pred ceecccccccccCcccccccccC
Q 038715 169 PLSMSSVGVMVSSNLDPILTSRV 191 (332)
Q Consensus 169 ~~~C~~C~k~F~~~~~L~~H~~~ 191 (332)
.|.|+.||..|.-...+.-|-..
T Consensus 38 ~~~CP~Cg~~~~~~~p~lY~D~~ 60 (128)
T PF14353_consen 38 SFTCPSCGHKFRLEYPLLYHDPE 60 (128)
T ss_pred EEECCCCCCceecCCCEEEEcCC
Confidence 57788888888777777766444
No 98
>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=57.43 E-value=6.6 Score=30.06 Aligned_cols=25 Identities=20% Similarity=0.340 Sum_probs=18.1
Q ss_pred eecccccccccCcccccccccCCCCccCCCCCC
Q 038715 170 LSMSSVGVMVSSNLDPILTSRVSKPYLSSVCGS 202 (332)
Q Consensus 170 ~~C~~C~k~F~~~~~L~~H~~~~~p~~C~~C~~ 202 (332)
..|+.||+.|-. |++ .|-.|+.||+
T Consensus 10 R~Cp~CG~kFYD---Lnk-----~PivCP~CG~ 34 (108)
T PF09538_consen 10 RTCPSCGAKFYD---LNK-----DPIVCPKCGT 34 (108)
T ss_pred ccCCCCcchhcc---CCC-----CCccCCCCCC
Confidence 568888888853 333 6778999993
No 99
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=56.80 E-value=6.9 Score=39.61 Aligned_cols=55 Identities=11% Similarity=0.218 Sum_probs=38.9
Q ss_pred cCCCCcccccCCCCcccccccCCCCcee-cccccccccCcccccccccCCCCccCCCCC
Q 038715 144 TDSDSNTNIRMNPSISRDNIENSLRPLS-MSSVGVMVSSNLDPILTSRVSKPYLSSVCG 201 (332)
Q Consensus 144 ~c~~c~~~f~~~~~~~h~~~h~~~k~~~-C~~C~k~F~~~~~L~~H~~~~~p~~C~~C~ 201 (332)
.|..||-.|+.--.+...|-.+.-+.|. |+.|.+.|....+-+-|. .|.-|+.||
T Consensus 125 ~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfHA---Qp~aCp~CG 180 (750)
T COG0068 125 NCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFHA---QPIACPKCG 180 (750)
T ss_pred ccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCcccccccc---ccccCcccC
Confidence 3666666665333333556666666664 999999999998877775 568899999
No 100
>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=56.72 E-value=6.9 Score=29.98 Aligned_cols=30 Identities=27% Similarity=0.429 Sum_probs=22.2
Q ss_pred eecccccccccChhHHHHHHHhcCCCcccccCccccCCCcceecCCCCCCCCCCCCccCCh
Q 038715 6 YICEVCHKGFQRDQNLQLHRKGHNLPWKLMQRPTTQVKKGVYVCPKPNCVHHHPSRALGDL 66 (332)
Q Consensus 6 ~~C~~C~k~f~~~~~L~~H~~~h~~~~~l~~~~~~~~~~~~~~C~~C~C~~~~~~~~f~~~ 66 (332)
..|+.||++|... ...|..||.| |..|.-.
T Consensus 10 R~Cp~CG~kFYDL------------------------nk~PivCP~C-------G~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYDL------------------------NKDPIVCPKC-------GTEFPPE 39 (108)
T ss_pred ccCCCCcchhccC------------------------CCCCccCCCC-------CCccCcc
Confidence 5789999988642 4467789999 7777654
No 101
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=56.09 E-value=8.2 Score=31.97 Aligned_cols=23 Identities=17% Similarity=0.368 Sum_probs=13.2
Q ss_pred ceecccccccccCcccccccccCCCCccCCCCC
Q 038715 169 PLSMSSVGVMVSSNLDPILTSRVSKPYLSSVCG 201 (332)
Q Consensus 169 ~~~C~~C~k~F~~~~~L~~H~~~~~p~~C~~C~ 201 (332)
-|.|++||..+. . +.|-+||+||
T Consensus 134 ~~vC~vCGy~~~---------g-e~P~~CPiCg 156 (166)
T COG1592 134 VWVCPVCGYTHE---------G-EAPEVCPICG 156 (166)
T ss_pred EEEcCCCCCccc---------C-CCCCcCCCCC
Confidence 466666664422 2 4566666666
No 102
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=56.01 E-value=6 Score=32.37 Aligned_cols=38 Identities=8% Similarity=0.068 Sum_probs=21.2
Q ss_pred eeccccccccc---CcccccccccCCCCccCCCCCCCcccc
Q 038715 170 LSMSSVGVMVS---SNLDPILTSRVSKPYLSSVCGSNACAM 207 (332)
Q Consensus 170 ~~C~~C~k~F~---~~~~L~~H~~~~~p~~C~~C~~~~~~~ 207 (332)
++||.||-.++ ....+..-..+.+.++|+.||..|..+
T Consensus 1 m~cp~c~~~~~~~~~s~~~~~~~~~~~~~~c~~c~~~f~~~ 41 (154)
T PRK00464 1 MRCPFCGHPDTRVIDSRPAEDGNAIRRRRECLACGKRFTTF 41 (154)
T ss_pred CcCCCCCCCCCEeEeccccCCCCceeeeeeccccCCcceEe
Confidence 46999986552 222222211224459999999555443
No 103
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=55.16 E-value=5.8 Score=31.28 Aligned_cols=25 Identities=16% Similarity=0.335 Sum_probs=19.5
Q ss_pred ceecccccccccCcc-cccccccCCCCccCCCCC
Q 038715 169 PLSMSSVGVMVSSNL-DPILTSRVSKPYLSSVCG 201 (332)
Q Consensus 169 ~~~C~~C~k~F~~~~-~L~~H~~~~~p~~C~~C~ 201 (332)
|++|..||+.|...+ .|.. -|+.||
T Consensus 1 PH~Ct~Cg~~f~dgs~eil~--------GCP~CG 26 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGSKEILS--------GCPECG 26 (131)
T ss_pred CcccCcCCCCcCCCcHHHHc--------cCcccC
Confidence 688999999999776 3332 499999
No 104
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=54.55 E-value=8.1 Score=24.96 Aligned_cols=26 Identities=15% Similarity=0.253 Sum_probs=16.5
Q ss_pred ceecccccccccCcccccccccCCCCccCCCCC
Q 038715 169 PLSMSSVGVMVSSNLDPILTSRVSKPYLSSVCG 201 (332)
Q Consensus 169 ~~~C~~C~k~F~~~~~L~~H~~~~~p~~C~~C~ 201 (332)
.|.|..||+.|.... ......|+.||
T Consensus 6 ~Y~C~~Cg~~~~~~~-------~~~~irCp~Cg 31 (49)
T COG1996 6 EYKCARCGREVELDQ-------ETRGIRCPYCG 31 (49)
T ss_pred EEEhhhcCCeeehhh-------ccCceeCCCCC
Confidence 578888888772111 14556788887
No 105
>COG1773 Rubredoxin [Energy production and conversion]
Probab=53.50 E-value=15 Score=24.41 Aligned_cols=33 Identities=12% Similarity=0.196 Sum_probs=17.9
Q ss_pred ceecccccccccCcccccccccC--------CCCccCCCCC
Q 038715 169 PLSMSSVGVMVSSNLDPILTSRV--------SKPYLSSVCG 201 (332)
Q Consensus 169 ~~~C~~C~k~F~~~~~L~~H~~~--------~~p~~C~~C~ 201 (332)
.|+|..||..|.-..---.+-.. .--..|++|+
T Consensus 3 ~~~C~~CG~vYd~e~Gdp~~gi~pgT~fedlPd~w~CP~Cg 43 (55)
T COG1773 3 RWRCSVCGYVYDPEKGDPRCGIAPGTPFEDLPDDWVCPECG 43 (55)
T ss_pred ceEecCCceEeccccCCccCCCCCCCchhhCCCccCCCCCC
Confidence 46677777766654433333222 2235677777
No 106
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=52.39 E-value=13 Score=32.73 Aligned_cols=39 Identities=21% Similarity=0.574 Sum_probs=21.9
Q ss_pred cccccChhhhcCchhhHHHHHHhCCCCeeee-cCCccccch
Q 038715 82 WKCDKCSKCYAVQSDWKAHTKICGTREHRCD-CGIIFSSQN 121 (332)
Q Consensus 82 ~~C~~C~~~f~~~~~L~~H~~~h~~k~~~C~-C~k~f~~~~ 121 (332)
|.|..||... .+..+.+|+.++....|.|- |++.|-..+
T Consensus 4 FtCnvCgEsv-KKp~vekH~srCrn~~fSCIDC~k~F~~~s 43 (276)
T KOG2186|consen 4 FTCNVCGESV-KKPQVEKHMSRCRNAYFSCIDCGKTFERVS 43 (276)
T ss_pred Eehhhhhhhc-cccchHHHHHhccCCeeEEeecccccccch
Confidence 5666666553 33445566666222556664 776666533
No 107
>PF14353 CpXC: CpXC protein
Probab=52.10 E-value=7.1 Score=30.72 Aligned_cols=32 Identities=9% Similarity=0.190 Sum_probs=22.0
Q ss_pred eecccccccccCcccccccccC------------CCCccCCCCC
Q 038715 170 LSMSSVGVMVSSNLDPILTSRV------------SKPYLSSVCG 201 (332)
Q Consensus 170 ~~C~~C~k~F~~~~~L~~H~~~------------~~p~~C~~C~ 201 (332)
..|+.|+..|............ --.|.|+.||
T Consensus 2 itCP~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg 45 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCPSCG 45 (128)
T ss_pred cCCCCCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECCCCC
Confidence 4688899888866544333222 3468999999
No 108
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=51.20 E-value=9.2 Score=25.69 Aligned_cols=31 Identities=19% Similarity=0.424 Sum_probs=16.6
Q ss_pred ceecccccccccCcccccccccCCCCccCCCCC
Q 038715 169 PLSMSSVGVMVSSNLDPILTSRVSKPYLSSVCG 201 (332)
Q Consensus 169 ~~~C~~C~k~F~~~~~L~~H~~~~~p~~C~~C~ 201 (332)
.|.|+.||..-..+-. +=.+...+|.|+.||
T Consensus 25 ~F~CPnCG~~~I~RC~--~CRk~~~~Y~CP~CG 55 (59)
T PRK14890 25 KFLCPNCGEVIIYRCE--KCRKQSNPYTCPKCG 55 (59)
T ss_pred EeeCCCCCCeeEeech--hHHhcCCceECCCCC
Confidence 5777777765222210 011115678888887
No 109
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=50.73 E-value=6.4 Score=27.72 Aligned_cols=21 Identities=5% Similarity=-0.123 Sum_probs=12.9
Q ss_pred CCCCceecc--cccccccCcccc
Q 038715 165 NSLRPLSMS--SVGVMVSSNLDP 185 (332)
Q Consensus 165 ~~~k~~~C~--~C~k~F~~~~~L 185 (332)
..++-++|. .||.+|.....+
T Consensus 23 ~~~~Y~qC~N~eCg~tF~t~es~ 45 (72)
T PRK09678 23 TKERYHQCQNVNCSATFITYESV 45 (72)
T ss_pred hheeeeecCCCCCCCEEEEEEEE
Confidence 344556776 677777765543
No 110
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=49.41 E-value=13 Score=23.94 Aligned_cols=24 Identities=38% Similarity=0.699 Sum_probs=19.6
Q ss_pred ceecccccccccCh-----hHHHHHHH-hc
Q 038715 5 RYICEVCHKGFQRD-----QNLQLHRK-GH 28 (332)
Q Consensus 5 ~~~C~~C~k~f~~~-----~~L~~H~~-~h 28 (332)
.-.|..|++.+... ++|.+|++ .|
T Consensus 18 ~a~C~~C~~~l~~~~~~gTs~L~rHl~~~h 47 (50)
T smart00614 18 RAKCKYCGKKLSRSSKGGTSNLRRHLRRKH 47 (50)
T ss_pred EEEecCCCCEeeeCCCCCcHHHHHHHHhHC
Confidence 45799999999776 68999988 55
No 111
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=48.24 E-value=6.9 Score=33.95 Aligned_cols=22 Identities=9% Similarity=0.125 Sum_probs=14.5
Q ss_pred cceecCCCCCCCCCCCCccCChhhHhhhh
Q 038715 45 GVYVCPKPNCVHHHPSRALGDLTGVKKHF 73 (332)
Q Consensus 45 ~~~~C~~C~C~~~~~~~~f~~~~~L~~H~ 73 (332)
+.+.||+| +..|....-.....
T Consensus 4 k~~~CPvC-------~~~F~~~~vrs~~~ 25 (214)
T PF09986_consen 4 KKITCPVC-------GKEFKTKKVRSGKI 25 (214)
T ss_pred CceECCCC-------CCeeeeeEEEcCCc
Confidence 45678888 88887765444443
No 112
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=45.83 E-value=11 Score=24.84 Aligned_cols=23 Identities=17% Similarity=0.312 Sum_probs=15.3
Q ss_pred eecccccccccCcccccccccCCCCccCCCCC
Q 038715 170 LSMSSVGVMVSSNLDPILTSRVSKPYLSSVCG 201 (332)
Q Consensus 170 ~~C~~C~k~F~~~~~L~~H~~~~~p~~C~~C~ 201 (332)
..|..|++.|....... .|+.|+
T Consensus 6 ~~C~~Cg~~~~~~dDiV---------vCp~Cg 28 (54)
T PF14446_consen 6 CKCPVCGKKFKDGDDIV---------VCPECG 28 (54)
T ss_pred ccChhhCCcccCCCCEE---------ECCCCC
Confidence 45777777777665543 477777
No 113
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=45.06 E-value=14 Score=30.59 Aligned_cols=25 Identities=32% Similarity=0.636 Sum_probs=19.2
Q ss_pred cceecCCCCCCCCCCCCccCChhhHhhhhccccCCCccccccChh
Q 038715 45 GVYVCPKPNCVHHHPSRALGDLTGVKKHFCRKHGEKKWKCDKCSK 89 (332)
Q Consensus 45 ~~~~C~~C~C~~~~~~~~f~~~~~L~~H~~~h~~ek~~~C~~C~~ 89 (332)
+.|.|++| |.. +.++.|-+|++||.
T Consensus 133 ~~~vC~vC-------Gy~-------------~~ge~P~~CPiCga 157 (166)
T COG1592 133 KVWVCPVC-------GYT-------------HEGEAPEVCPICGA 157 (166)
T ss_pred CEEEcCCC-------CCc-------------ccCCCCCcCCCCCC
Confidence 37999999 653 34678899999983
No 114
>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=45.02 E-value=21 Score=31.63 Aligned_cols=10 Identities=40% Similarity=0.836 Sum_probs=8.6
Q ss_pred CCCccCCCCC
Q 038715 192 SKPYLSSVCG 201 (332)
Q Consensus 192 ~~p~~C~~C~ 201 (332)
.+++.||.|+
T Consensus 207 ~k~~PCPKCg 216 (314)
T PF06524_consen 207 GKPIPCPKCG 216 (314)
T ss_pred CCCCCCCCCC
Confidence 6788899998
No 115
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=44.82 E-value=19 Score=25.49 Aligned_cols=29 Identities=10% Similarity=0.133 Sum_probs=21.5
Q ss_pred ceecccccccccCcccccccccCCCCccCCCCC
Q 038715 169 PLSMSSVGVMVSSNLDPILTSRVSKPYLSSVCG 201 (332)
Q Consensus 169 ~~~C~~C~k~F~~~~~L~~H~~~~~p~~C~~C~ 201 (332)
.|+|..|+..|. +.+|++-...-.|+.|+
T Consensus 12 ~Y~c~~cg~~~d----vvq~~~ddplt~ce~c~ 40 (82)
T COG2331 12 SYECTECGNRFD----VVQAMTDDPLTTCEECG 40 (82)
T ss_pred EEeecccchHHH----HHHhcccCccccChhhC
Confidence 589999998774 45555555556799999
No 116
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=44.81 E-value=10 Score=26.75 Aligned_cols=32 Identities=6% Similarity=0.065 Sum_probs=23.1
Q ss_pred eecccccccccCcccccccccC-CCCccCC--CCC
Q 038715 170 LSMSSVGVMVSSNLDPILTSRV-SKPYLSS--VCG 201 (332)
Q Consensus 170 ~~C~~C~k~F~~~~~L~~H~~~-~~p~~C~--~C~ 201 (332)
+.|+.||..-....+-..+..+ ++-++|. .||
T Consensus 2 m~CP~Cg~~a~irtSr~~s~~~~~~Y~qC~N~eCg 36 (72)
T PRK09678 2 FHCPLCQHAAHARTSRYITDTTKERYHQCQNVNCS 36 (72)
T ss_pred ccCCCCCCccEEEEChhcChhhheeeeecCCCCCC
Confidence 5799998776555554444445 7889998 999
No 117
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=44.63 E-value=50 Score=30.10 Aligned_cols=20 Identities=10% Similarity=0.057 Sum_probs=10.6
Q ss_pred ceecccccccccCccccccc
Q 038715 169 PLSMSSVGVMVSSNLDPILT 188 (332)
Q Consensus 169 ~~~C~~C~k~F~~~~~L~~H 188 (332)
.|.|+.|...|-..-+.-.|
T Consensus 388 rY~Ce~CK~~FC~dCdvfiH 407 (421)
T COG5151 388 RYQCELCKSTFCSDCDVFIH 407 (421)
T ss_pred ceechhhhhhhhhhhHHHHH
Confidence 56666666655544443333
No 118
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=43.69 E-value=17 Score=28.95 Aligned_cols=18 Identities=17% Similarity=0.012 Sum_probs=12.8
Q ss_pred CCCCceecccccccccCc
Q 038715 165 NSLRPLSMSSVGVMVSSN 182 (332)
Q Consensus 165 ~~~k~~~C~~C~k~F~~~ 182 (332)
..+..+.|..||..|...
T Consensus 66 ~~p~~~~C~~CG~~~~~~ 83 (135)
T PRK03824 66 EEEAVLKCRNCGNEWSLK 83 (135)
T ss_pred ecceEEECCCCCCEEecc
Confidence 334568899998888764
No 119
>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=42.08 E-value=26 Score=28.77 Aligned_cols=34 Identities=12% Similarity=0.434 Sum_probs=25.0
Q ss_pred CCcceecCCCCCCCCCCCCccCChhhHhhhhccccCCCccccccChhhhc
Q 038715 43 KKGVYVCPKPNCVHHHPSRALGDLTGVKKHFCRKHGEKKWKCDKCSKCYA 92 (332)
Q Consensus 43 ~~~~~~C~~C~C~~~~~~~~f~~~~~L~~H~~~h~~ek~~~C~~C~~~f~ 92 (332)
...-|.|+.| +..|.....+. .-|.|+.||....
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 5567889988 78887777664 2589999986543
No 120
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=39.87 E-value=8.2 Score=39.05 Aligned_cols=27 Identities=30% Similarity=0.479 Sum_probs=24.3
Q ss_pred CCceecccccccccChhHHHHHHHhcC
Q 038715 3 TNRYICEVCHKGFQRDQNLQLHRKGHN 29 (332)
Q Consensus 3 ~k~~~C~~C~k~f~~~~~L~~H~~~h~ 29 (332)
+.-|.|..|+|+|.....+..||+.|.
T Consensus 790 ~giFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 790 TGIFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred CceeehHHHHHHHHHHhhhhHHHHHHH
Confidence 346999999999999999999999995
No 121
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=39.03 E-value=9 Score=25.44 Aligned_cols=33 Identities=15% Similarity=0.250 Sum_probs=17.8
Q ss_pred Cceeccc--ccccccCcccccccccC---CCCccCCC----CC
Q 038715 168 RPLSMSS--VGVMVSSNLDPILTSRV---SKPYLSSV----CG 201 (332)
Q Consensus 168 k~~~C~~--C~k~F~~~~~L~~H~~~---~~p~~C~~----C~ 201 (332)
++..|+. |...+. +..|..|... .++..|+. |.
T Consensus 8 ~~v~C~~~cc~~~i~-r~~l~~H~~~~C~~~~v~C~~~~~GC~ 49 (60)
T PF02176_consen 8 RPVPCPNGCCNEMIP-RKELDDHLENECPKRPVPCPYSPYGCK 49 (60)
T ss_dssp SEEE-TT--S-BEEE-CCCHHHHHHTTSTTSEEE-SS----S-
T ss_pred CEeeCCCCCccccee-HHHHHHHHHccCCCCcEECCCCCCCCC
Confidence 4566766 434344 4577777774 66667777 76
No 122
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=38.77 E-value=30 Score=35.73 Aligned_cols=28 Identities=18% Similarity=0.303 Sum_probs=19.0
Q ss_pred cccCCCCceecccccccccCcccccccccCCCCccCCCCC
Q 038715 162 NIENSLRPLSMSSVGVMVSSNLDPILTSRVSKPYLSSVCG 201 (332)
Q Consensus 162 ~~h~~~k~~~C~~C~k~F~~~~~L~~H~~~~~p~~C~~C~ 201 (332)
..|...+...|..||.. ...|..|+.||
T Consensus 455 t~H~~~~~L~CH~Cg~~------------~~~p~~Cp~Cg 482 (730)
T COG1198 455 TLHKATGQLRCHYCGYQ------------EPIPQSCPECG 482 (730)
T ss_pred EEecCCCeeEeCCCCCC------------CCCCCCCCCCC
Confidence 34445567778888643 24688999999
No 123
>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=38.19 E-value=24 Score=30.57 Aligned_cols=28 Identities=18% Similarity=0.441 Sum_probs=21.5
Q ss_pred CCCceecccccccccChhHHHHHHHhcC
Q 038715 2 ATNRYICEVCHKGFQRDQNLQLHRKGHN 29 (332)
Q Consensus 2 ~~k~~~C~~C~k~f~~~~~L~~H~~~h~ 29 (332)
++..|.|..|+|.|.-..-...|+..-+
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~nKH 101 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFNKH 101 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHHH-
T ss_pred cCCEECCCCCCcccCChHHHHHHHhhcC
Confidence 4567999999999999999999976543
No 124
>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=38.00 E-value=31 Score=18.94 Aligned_cols=20 Identities=10% Similarity=0.112 Sum_probs=13.6
Q ss_pred ccCCCCCCCcccccccccccChhHHHHHHH
Q 038715 195 YLSSVCGSNACAMAIGSSFTSSTALLQKAA 224 (332)
Q Consensus 195 ~~C~~C~~~~~~~~~~~~f~~~~~L~~H~~ 224 (332)
..||+|+ +.+ ....+..|..
T Consensus 2 v~CPiC~---------~~v-~~~~in~HLD 21 (26)
T smart00734 2 VQCPVCF---------REV-PENLINSHLD 21 (26)
T ss_pred CcCCCCc---------Ccc-cHHHHHHHHH
Confidence 3688888 666 5566777765
No 125
>PF15269 zf-C2H2_7: Zinc-finger
Probab=37.93 E-value=22 Score=22.34 Aligned_cols=23 Identities=26% Similarity=0.316 Sum_probs=20.1
Q ss_pred eecccccccccChhHHHHHHHhc
Q 038715 6 YICEVCHKGFQRDQNLQLHRKGH 28 (332)
Q Consensus 6 ~~C~~C~k~f~~~~~L~~H~~~h 28 (332)
|+|-+|......++.|..||+..
T Consensus 21 ykcfqcpftc~~kshl~nhmky~ 43 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMKYS 43 (54)
T ss_pred ceeecCCcccchHHHHHHHHHHH
Confidence 78999999888999999999764
No 126
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=37.79 E-value=12 Score=35.55 Aligned_cols=38 Identities=11% Similarity=0.109 Sum_probs=27.0
Q ss_pred cCCCCceecccccccccCcccccccccCCCCccCCCCC
Q 038715 164 ENSLRPLSMSSVGVMVSSNLDPILTSRVSKPYLSSVCG 201 (332)
Q Consensus 164 h~~~k~~~C~~C~k~F~~~~~L~~H~~~~~p~~C~~C~ 201 (332)
-+...-|.|+.|.+.|+.-..|+-=-...-.|.|..|+
T Consensus 123 ~t~~~~Y~Cp~C~kkyt~Lea~~L~~~~~~~F~C~~C~ 160 (436)
T KOG2593|consen 123 DTNVAGYVCPNCQKKYTSLEALQLLDNETGEFHCENCG 160 (436)
T ss_pred ccccccccCCccccchhhhHHHHhhcccCceEEEecCC
Confidence 34455799999999998776654322225679999998
No 127
>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=36.39 E-value=23 Score=27.80 Aligned_cols=31 Identities=16% Similarity=0.184 Sum_probs=21.3
Q ss_pred ceecccccccccChhHHHHHHHhcCCCcccccCccccCCCcceecCCCCCCCCCCCCccCCh
Q 038715 5 RYICEVCHKGFQRDQNLQLHRKGHNLPWKLMQRPTTQVKKGVYVCPKPNCVHHHPSRALGDL 66 (332)
Q Consensus 5 ~~~C~~C~k~f~~~~~L~~H~~~h~~~~~l~~~~~~~~~~~~~~C~~C~C~~~~~~~~f~~~ 66 (332)
...|+.||++|... ...|..|+.| |..|...
T Consensus 9 Kr~Cp~cg~kFYDL------------------------nk~p~vcP~c-------g~~~~~~ 39 (129)
T TIGR02300 9 KRICPNTGSKFYDL------------------------NRRPAVSPYT-------GEQFPPE 39 (129)
T ss_pred cccCCCcCcccccc------------------------CCCCccCCCc-------CCccCcc
Confidence 35688888888642 4567788888 7766544
No 128
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=36.04 E-value=20 Score=26.40 Aligned_cols=14 Identities=7% Similarity=-0.045 Sum_probs=8.9
Q ss_pred ceecccccccccCc
Q 038715 169 PLSMSSVGVMVSSN 182 (332)
Q Consensus 169 ~~~C~~C~k~F~~~ 182 (332)
.+.|..|++.|.--
T Consensus 54 IW~C~~C~~~~AGG 67 (90)
T PTZ00255 54 IWRCKGCKKTVAGG 67 (90)
T ss_pred EEEcCCCCCEEeCC
Confidence 56677777766543
No 129
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=35.80 E-value=21 Score=29.97 Aligned_cols=32 Identities=13% Similarity=0.411 Sum_probs=17.1
Q ss_pred CcceecCCCCCCCCCCCCccCChhhHhhhhccccCCCccccccChhhh
Q 038715 44 KGVYVCPKPNCVHHHPSRALGDLTGVKKHFCRKHGEKKWKCDKCSKCY 91 (332)
Q Consensus 44 ~~~~~C~~C~C~~~~~~~~f~~~~~L~~H~~~h~~ek~~~C~~C~~~f 91 (332)
..-|.|+.| +..|.....+. .-|.|+.||...
T Consensus 115 ~~~Y~Cp~C-------~~rytf~eA~~---------~~F~Cp~Cg~~L 146 (178)
T PRK06266 115 NMFFFCPNC-------HIRFTFDEAME---------YGFRCPQCGEML 146 (178)
T ss_pred CCEEECCCC-------CcEEeHHHHhh---------cCCcCCCCCCCC
Confidence 345666666 55555544432 236666666543
No 130
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=34.82 E-value=27 Score=20.71 Aligned_cols=15 Identities=7% Similarity=-0.082 Sum_probs=6.6
Q ss_pred ecccccccccCcccc
Q 038715 171 SMSSVGVMVSSNLDP 185 (332)
Q Consensus 171 ~C~~C~k~F~~~~~L 185 (332)
.|..|++.|....-+
T Consensus 5 ~C~eC~~~f~dSyL~ 19 (34)
T PF01286_consen 5 KCDECGKPFMDSYLL 19 (34)
T ss_dssp E-TTT--EES-SSCC
T ss_pred hHhHhCCHHHHHHHH
Confidence 566777777665443
No 131
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=34.28 E-value=18 Score=31.26 Aligned_cols=29 Identities=24% Similarity=0.455 Sum_probs=20.1
Q ss_pred CCCccccccChhhhcCchhhHHHHHH-hCC
Q 038715 78 GEKKWKCDKCSKCYAVQSDWKAHTKI-CGT 106 (332)
Q Consensus 78 ~ek~~~C~~C~~~f~~~~~L~~H~~~-h~~ 106 (332)
.+..|.|..|+|.|.-..-+.+|+.. |.+
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~nKH~e 103 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFNKHPE 103 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHHH-HH
T ss_pred cCCEECCCCCCcccCChHHHHHHHhhcCHH
Confidence 34458888888888888888888888 744
No 132
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=34.20 E-value=20 Score=19.44 Aligned_cols=10 Identities=20% Similarity=0.501 Sum_probs=8.4
Q ss_pred Cceecccccc
Q 038715 4 NRYICEVCHK 13 (332)
Q Consensus 4 k~~~C~~C~k 13 (332)
.+|.|+.||+
T Consensus 15 v~f~CPnCG~ 24 (24)
T PF07754_consen 15 VPFPCPNCGF 24 (24)
T ss_pred ceEeCCCCCC
Confidence 4799999985
No 133
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=33.51 E-value=23 Score=32.77 Aligned_cols=32 Identities=3% Similarity=-0.119 Sum_probs=23.6
Q ss_pred cccccCCCCceecccccccccCcccccccccC
Q 038715 160 RDNIENSLRPLSMSSVGVMVSSNLDPILTSRV 191 (332)
Q Consensus 160 h~~~h~~~k~~~C~~C~k~F~~~~~L~~H~~~ 191 (332)
|+-.-...|+|.|++|.+.++....|.-|+.+
T Consensus 389 h~~~~~~nk~~r~~i~~~~~k~~~~l~~~~~~ 420 (442)
T KOG4124|consen 389 HQGFVVENKPYRCEVCSKRYKNLNGLKYHRTH 420 (442)
T ss_pred cceeeeccCcccChhhhhhhccCCCCCceeeh
Confidence 44444557899999999999888777766544
No 134
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=33.02 E-value=37 Score=22.44 Aligned_cols=11 Identities=9% Similarity=0.123 Sum_probs=6.1
Q ss_pred ceecccccccc
Q 038715 169 PLSMSSVGVMV 179 (332)
Q Consensus 169 ~~~C~~C~k~F 179 (332)
...|+.||..|
T Consensus 22 iV~Cp~CGael 32 (54)
T TIGR01206 22 LVICDECGAEL 32 (54)
T ss_pred EEeCCCCCCEE
Confidence 34566666554
No 135
>PF08790 zf-LYAR: LYAR-type C2HC zinc finger ; InterPro: IPR014898 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 C2HC zinc finger domain is found in LYAR proteins such as Q08288 from SWISSPROT, which are involved in cell growth regulation. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1WJV_A.
Probab=33.00 E-value=22 Score=20.07 Aligned_cols=19 Identities=5% Similarity=-0.188 Sum_probs=10.5
Q ss_pred eecccccccccCcccccccc
Q 038715 170 LSMSSVGVMVSSNLDPILTS 189 (332)
Q Consensus 170 ~~C~~C~k~F~~~~~L~~H~ 189 (332)
|.|-.|++.| .....+.|.
T Consensus 1 ~sCiDC~~~F-~~~~y~~Ht 19 (28)
T PF08790_consen 1 FSCIDCSKDF-DGDSYKSHT 19 (28)
T ss_dssp EEETTTTEEE-EGGGTTT--
T ss_pred CeeecCCCCc-CcCCcCCCC
Confidence 4677777777 444455553
No 136
>PRK12496 hypothetical protein; Provisional
Probab=32.76 E-value=31 Score=28.54 Aligned_cols=24 Identities=8% Similarity=0.171 Sum_probs=17.5
Q ss_pred ceecccccccccCcccccccccCCCCccCCCCC
Q 038715 169 PLSMSSVGVMVSSNLDPILTSRVSKPYLSSVCG 201 (332)
Q Consensus 169 ~~~C~~C~k~F~~~~~L~~H~~~~~p~~C~~C~ 201 (332)
.|.|.-|++.|.....- -.|++||
T Consensus 127 ~~~C~gC~~~~~~~~~~---------~~C~~CG 150 (164)
T PRK12496 127 RKVCKGCKKKYPEDYPD---------DVCEICG 150 (164)
T ss_pred eEECCCCCccccCCCCC---------CcCCCCC
Confidence 58899999998654321 2499999
No 137
>PRK14873 primosome assembly protein PriA; Provisional
Probab=31.07 E-value=38 Score=34.74 Aligned_cols=29 Identities=14% Similarity=0.150 Sum_probs=18.6
Q ss_pred ccccCCCCceecccccccccCcccccccccCCCCccCCCCCC
Q 038715 161 DNIENSLRPLSMSSVGVMVSSNLDPILTSRVSKPYLSSVCGS 202 (332)
Q Consensus 161 ~~~h~~~k~~~C~~C~k~F~~~~~L~~H~~~~~p~~C~~C~~ 202 (332)
+..|...+...|..||.. ..|..|+.|+.
T Consensus 402 L~~h~~~~~l~Ch~CG~~-------------~~p~~Cp~Cgs 430 (665)
T PRK14873 402 LGLPSAGGTPRCRWCGRA-------------APDWRCPRCGS 430 (665)
T ss_pred eeEecCCCeeECCCCcCC-------------CcCccCCCCcC
Confidence 334555557778888742 13678999993
No 138
>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=30.85 E-value=25 Score=25.97 Aligned_cols=14 Identities=7% Similarity=0.109 Sum_probs=8.5
Q ss_pred ceecccccccccCc
Q 038715 169 PLSMSSVGVMVSSN 182 (332)
Q Consensus 169 ~~~C~~C~k~F~~~ 182 (332)
.++|..|++.|.--
T Consensus 53 IW~C~~C~~~~AGG 66 (91)
T TIGR00280 53 IWTCRKCGAKFAGG 66 (91)
T ss_pred EEEcCCCCCEEeCC
Confidence 46666666666543
No 139
>PF15506 OCC1: OCC1 family
Probab=30.41 E-value=26 Score=22.94 Aligned_cols=14 Identities=43% Similarity=0.705 Sum_probs=11.8
Q ss_pred CcccccCCcEeecc
Q 038715 315 GKKRSLGGTVVDLG 328 (332)
Q Consensus 315 ~~~~~~~~~~~~~~ 328 (332)
-|.|+|||-.|+|-
T Consensus 33 dKRRNYGGVYVGlP 46 (62)
T PF15506_consen 33 DKRRNYGGVYVGLP 46 (62)
T ss_pred hhhcccCCeEEeCc
Confidence 48899999999873
No 140
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=30.34 E-value=42 Score=20.67 Aligned_cols=24 Identities=25% Similarity=0.545 Sum_probs=18.8
Q ss_pred eecccccccccC--hhHHHHHHHhcC
Q 038715 6 YICEVCHKGFQR--DQNLQLHRKGHN 29 (332)
Q Consensus 6 ~~C~~C~k~f~~--~~~L~~H~~~h~ 29 (332)
-.|+.||..|.. ..+-..|.+.|.
T Consensus 14 ~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 14 TTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred cCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 589999998874 567778888773
No 141
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=30.27 E-value=11 Score=34.20 Aligned_cols=15 Identities=20% Similarity=0.211 Sum_probs=8.1
Q ss_pred CCceecccccccccC
Q 038715 167 LRPLSMSSVGVMVSS 181 (332)
Q Consensus 167 ~k~~~C~~C~k~F~~ 181 (332)
.+-+.|..|+.-++.
T Consensus 236 ~rve~C~~C~~YlK~ 250 (290)
T PF04216_consen 236 YRVEVCESCGSYLKT 250 (290)
T ss_dssp EEEEEETTTTEEEEE
T ss_pred EEEEECCcccchHHH
Confidence 345566666644443
No 142
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=29.26 E-value=36 Score=26.24 Aligned_cols=26 Identities=8% Similarity=-0.058 Sum_probs=17.9
Q ss_pred CCceecccccccccCcccccccccCCCCccCCCCC
Q 038715 167 LRPLSMSSVGVMVSSNLDPILTSRVSKPYLSSVCG 201 (332)
Q Consensus 167 ~k~~~C~~C~k~F~~~~~L~~H~~~~~p~~C~~C~ 201 (332)
+-.+.|..|+..|.... ..|.||.||
T Consensus 68 p~~~~C~~Cg~~~~~~~---------~~~~CP~Cg 93 (113)
T PRK12380 68 PAQAWCWDCSQVVEIHQ---------HDAQCPHCH 93 (113)
T ss_pred CcEEEcccCCCEEecCC---------cCccCcCCC
Confidence 34678888987776543 235688888
No 143
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=29.18 E-value=28 Score=21.22 Aligned_cols=15 Identities=7% Similarity=0.135 Sum_probs=12.3
Q ss_pred ceecccccccccCcc
Q 038715 169 PLSMSSVGVMVSSNL 183 (332)
Q Consensus 169 ~~~C~~C~k~F~~~~ 183 (332)
||+|..|++.|=..-
T Consensus 12 ~f~C~~C~~~FC~~H 26 (39)
T smart00154 12 GFKCRHCGNLFCGEH 26 (39)
T ss_pred CeECCccCCcccccc
Confidence 899999999887654
No 144
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=29.13 E-value=17 Score=23.72 Aligned_cols=26 Identities=35% Similarity=0.672 Sum_probs=16.0
Q ss_pred CceecccccccccChhHHHHHHHhcC
Q 038715 4 NRYICEVCHKGFQRDQNLQLHRKGHN 29 (332)
Q Consensus 4 k~~~C~~C~k~f~~~~~L~~H~~~h~ 29 (332)
..|+|+.|...|=-.=++-.|...|.
T Consensus 20 ~~y~C~~C~~~FC~dCD~fiHE~LH~ 45 (51)
T PF07975_consen 20 SRYRCPKCKNHFCIDCDVFIHETLHN 45 (51)
T ss_dssp EEE--TTTT--B-HHHHHTTTTTS-S
T ss_pred CeEECCCCCCccccCcChhhhccccC
Confidence 57999999999988888877776663
No 145
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=28.79 E-value=54 Score=26.03 Aligned_cols=18 Identities=17% Similarity=0.608 Sum_probs=12.9
Q ss_pred CCCceecccccccccChh
Q 038715 2 ATNRYICEVCHKGFQRDQ 19 (332)
Q Consensus 2 ~~k~~~C~~C~k~f~~~~ 19 (332)
+.+.|+|.+|......+.
T Consensus 77 d~~lYeCnIC~etS~ee~ 94 (140)
T PF05290_consen 77 DPKLYECNICKETSAEER 94 (140)
T ss_pred CCCceeccCcccccchhh
Confidence 357799999987766543
No 146
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=28.43 E-value=35 Score=35.25 Aligned_cols=15 Identities=20% Similarity=0.113 Sum_probs=11.1
Q ss_pred cCCCCceeccccccc
Q 038715 164 ENSLRPLSMSSVGVM 178 (332)
Q Consensus 164 h~~~k~~~C~~C~k~ 178 (332)
+....|..|+.||-.
T Consensus 470 ~~~~~p~~Cp~Cgs~ 484 (730)
T COG1198 470 YQEPIPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCCCCCC
Confidence 345568999999855
No 147
>PF01780 Ribosomal_L37ae: Ribosomal L37ae protein family; InterPro: IPR002674 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This ribosomal protein is found in archaebacteria and eukaryotes []. Ribosomal protein L37 has a single zinc finger-like motif of the C2-C2 type [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_Y 4A17_Y 4A1C_Y 4A1A_Y 3O58_g 3IZS_m 3O5H_g 1S1I_9 3IZR_m 1YSH_D ....
Probab=28.35 E-value=21 Score=26.27 Aligned_cols=14 Identities=7% Similarity=0.041 Sum_probs=9.1
Q ss_pred ceecccccccccCc
Q 038715 169 PLSMSSVGVMVSSN 182 (332)
Q Consensus 169 ~~~C~~C~k~F~~~ 182 (332)
.++|..|++.|.--
T Consensus 53 IW~C~~C~~~~AGG 66 (90)
T PF01780_consen 53 IWKCKKCGKKFAGG 66 (90)
T ss_dssp EEEETTTTEEEE-B
T ss_pred EeecCCCCCEEeCC
Confidence 47777777777643
No 148
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=27.48 E-value=40 Score=26.04 Aligned_cols=30 Identities=23% Similarity=0.299 Sum_probs=20.4
Q ss_pred ccCCCCceecccccccccCcccccccccCCCCccCCCCC
Q 038715 163 IENSLRPLSMSSVGVMVSSNLDPILTSRVSKPYLSSVCG 201 (332)
Q Consensus 163 ~h~~~k~~~C~~C~k~F~~~~~L~~H~~~~~p~~C~~C~ 201 (332)
+..-.-...|..|+..|..... -+.||.|+
T Consensus 64 I~~~p~~~~C~~Cg~~~~~~~~---------~~~CP~Cg 93 (115)
T TIGR00100 64 IEDEPVECECEDCSEEVSPEID---------LYRCPKCH 93 (115)
T ss_pred EEeeCcEEEcccCCCEEecCCc---------CccCcCCc
Confidence 3333446889999987776542 36799998
No 149
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=27.34 E-value=32 Score=26.13 Aligned_cols=24 Identities=17% Similarity=0.483 Sum_probs=20.6
Q ss_pred ccc----ccChhhhcCchhhHHHHHH-hC
Q 038715 82 WKC----DKCSKCYAVQSDWKAHTKI-CG 105 (332)
Q Consensus 82 ~~C----~~C~~~f~~~~~L~~H~~~-h~ 105 (332)
|.| ..|+..+.+...+..|.+. ||
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 788 8899999999999999887 64
No 150
>TIGR00244 transcriptional regulator NrdR. Members of this almost entirely bacterial family contain an ATP cone domain (PFAM:PF03477). There is never more than one member per genome. Common gene symbols given include nrdR, ybaD, ribX and ytcG. The member from Streptomyces coelicolor is found upstream in the operon of the class II oxygen-independent ribonucleotide reductase gene nrdJ and was shown to repress nrdJ expression. Many members of this family are found near genes for riboflavin biosynthesis in Gram-negative bacteria, suggesting a role in that pathway. However, a phylogenetic profiling study associates members of this family with the presence of a palindromic signal with consensus acaCwAtATaTwGtgt, termed the NrdR-box, an upstream element for most operons for ribonucleotide reductase of all three classes in bacterial genomes.
Probab=26.51 E-value=36 Score=27.55 Aligned_cols=19 Identities=5% Similarity=-0.198 Sum_probs=13.2
Q ss_pred CceecccccccccCccccc
Q 038715 168 RPLSMSSVGVMVSSNLDPI 186 (332)
Q Consensus 168 k~~~C~~C~k~F~~~~~L~ 186 (332)
+.-+|..|++.|++.....
T Consensus 27 RRReC~~C~~RFTTyErve 45 (147)
T TIGR00244 27 RRRECLECHERFTTFERAE 45 (147)
T ss_pred ecccCCccCCccceeeecc
Confidence 3567888888888766443
No 151
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=26.28 E-value=32 Score=25.35 Aligned_cols=13 Identities=8% Similarity=0.074 Sum_probs=8.5
Q ss_pred ceecccccccccC
Q 038715 169 PLSMSSVGVMVSS 181 (332)
Q Consensus 169 ~~~C~~C~k~F~~ 181 (332)
.+.|..|++.|.-
T Consensus 54 IW~C~~C~~~~AG 66 (90)
T PRK03976 54 IWECRKCGAKFAG 66 (90)
T ss_pred EEEcCCCCCEEeC
Confidence 5667777766654
No 152
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=25.71 E-value=54 Score=25.27 Aligned_cols=29 Identities=7% Similarity=-0.045 Sum_probs=18.3
Q ss_pred CCCCceecccccccccCcccccccccCCCCccCCCCC
Q 038715 165 NSLRPLSMSSVGVMVSSNLDPILTSRVSKPYLSSVCG 201 (332)
Q Consensus 165 ~~~k~~~C~~C~k~F~~~~~L~~H~~~~~p~~C~~C~ 201 (332)
.-+-.+.|..|+..|..... ..+.||.||
T Consensus 66 ~~p~~~~C~~Cg~~~~~~~~--------~~~~CP~Cg 94 (114)
T PRK03681 66 EQEAECWCETCQQYVTLLTQ--------RVRRCPQCH 94 (114)
T ss_pred eeCcEEEcccCCCeeecCCc--------cCCcCcCcC
Confidence 33446788899876654322 115699998
No 153
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=25.59 E-value=60 Score=32.13 Aligned_cols=30 Identities=17% Similarity=0.174 Sum_probs=19.0
Q ss_pred cccccCCCCceecccccccccCcccccccccCCCCccCCCCC
Q 038715 160 RDNIENSLRPLSMSSVGVMVSSNLDPILTSRVSKPYLSSVCG 201 (332)
Q Consensus 160 h~~~h~~~k~~~C~~C~k~F~~~~~L~~H~~~~~p~~C~~C~ 201 (332)
.+..|.......|..||... ..|..|+.|+
T Consensus 231 ~l~~h~~~~~l~Ch~Cg~~~------------~~~~~Cp~C~ 260 (505)
T TIGR00595 231 SLTYHKKEGKLRCHYCGYQE------------PIPKTCPQCG 260 (505)
T ss_pred ceEEecCCCeEEcCCCcCcC------------CCCCCCCCCC
Confidence 34445555567777777432 3466799998
No 154
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=25.19 E-value=54 Score=19.58 Aligned_cols=10 Identities=10% Similarity=0.122 Sum_probs=5.6
Q ss_pred eccccccccc
Q 038715 171 SMSSVGVMVS 180 (332)
Q Consensus 171 ~C~~C~k~F~ 180 (332)
.|+.||+.|.
T Consensus 3 ~C~~Cg~~Yh 12 (36)
T PF05191_consen 3 ICPKCGRIYH 12 (36)
T ss_dssp EETTTTEEEE
T ss_pred CcCCCCCccc
Confidence 4566666554
No 155
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=25.18 E-value=26 Score=35.65 Aligned_cols=24 Identities=25% Similarity=0.508 Sum_probs=22.5
Q ss_pred ccccccChhhhcCchhhHHHHHHh
Q 038715 81 KWKCDKCSKCYAVQSDWKAHTKIC 104 (332)
Q Consensus 81 ~~~C~~C~~~f~~~~~L~~H~~~h 104 (332)
-|.|.+|++.|....++..||++|
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~H 815 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTH 815 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHH
Confidence 489999999999999999999997
No 156
>KOG0696 consensus Serine/threonine protein kinase [Signal transduction mechanisms]
Probab=25.06 E-value=49 Score=31.81 Aligned_cols=58 Identities=22% Similarity=0.473 Sum_probs=34.4
Q ss_pred CCceecccccccccChhHHHHHHHhcCCCcccccCccccCCCcceecCCCCCCCCCCCCccCChhhHhhh-hccccCCCc
Q 038715 3 TNRYICEVCHKGFQRDQNLQLHRKGHNLPWKLMQRPTTQVKKGVYVCPKPNCVHHHPSRALGDLTGVKKH-FCRKHGEKK 81 (332)
Q Consensus 3 ~k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~l~~~~~~~~~~~~~~C~~C~C~~~~~~~~f~~~~~L~~H-~~~h~~ek~ 81 (332)
..-|+|.+|-. ..|.+.| .-..|.|+-- ++.+.....-..| .+.|+-..|
T Consensus 71 KQGfQCqvC~f--------vvHkrCh--------------efVtF~CPGa-------dkg~dtDdpr~kHkf~~~tYssP 121 (683)
T KOG0696|consen 71 KQGFQCQVCCF--------VVHKRCH--------------EFVTFSCPGA-------DKGPDTDDPRSKHKFKIHTYSSP 121 (683)
T ss_pred cCceeeeEEee--------hhhhhhc--------------ceEEEECCCC-------CCCCCCCCcccccceeeeecCCC
Confidence 44566666643 3677777 4566777655 5666555555555 345555556
Q ss_pred cccccChh
Q 038715 82 WKCDKCSK 89 (332)
Q Consensus 82 ~~C~~C~~ 89 (332)
--|+.||.
T Consensus 122 TFCDhCGs 129 (683)
T KOG0696|consen 122 TFCDHCGS 129 (683)
T ss_pred chhhhHHH
Confidence 66777764
No 157
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=24.53 E-value=73 Score=30.46 Aligned_cols=39 Identities=23% Similarity=0.506 Sum_probs=26.2
Q ss_pred cCCCccccccChhhhcCchhhHHHHHH-hCCCCeeee-cCCccc
Q 038715 77 HGEKKWKCDKCSKCYAVQSDWKAHTKI-CGTREHRCD-CGIIFS 118 (332)
Q Consensus 77 ~~ek~~~C~~C~~~f~~~~~L~~H~~~-h~~k~~~C~-C~k~f~ 118 (332)
+...-|.|+.|.+.|.....+. .. -.+-.|.|. |+-...
T Consensus 124 t~~~~Y~Cp~C~kkyt~Lea~~---L~~~~~~~F~C~~C~gelv 164 (436)
T KOG2593|consen 124 TNVAGYVCPNCQKKYTSLEALQ---LLDNETGEFHCENCGGELV 164 (436)
T ss_pred cccccccCCccccchhhhHHHH---hhcccCceEEEecCCCchh
Confidence 3445699999999887665543 33 235679998 976554
No 158
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=24.34 E-value=30 Score=25.95 Aligned_cols=26 Identities=23% Similarity=0.422 Sum_probs=18.6
Q ss_pred ceecccccccccCcccccccccCCCCccCCCCC
Q 038715 169 PLSMSSVGVMVSSNLDPILTSRVSKPYLSSVCG 201 (332)
Q Consensus 169 ~~~C~~C~k~F~~~~~L~~H~~~~~p~~C~~C~ 201 (332)
|++|..||..|..-+.+.. --|+.||
T Consensus 2 pH~CtrCG~vf~~g~~~il-------~GCp~CG 27 (112)
T COG3364 2 PHQCTRCGEVFDDGSEEIL-------SGCPKCG 27 (112)
T ss_pred CceecccccccccccHHHH-------ccCcccc
Confidence 6788899999988543322 2588888
No 159
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 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 the AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=24.31 E-value=31 Score=21.40 Aligned_cols=16 Identities=13% Similarity=0.148 Sum_probs=10.2
Q ss_pred CceecccccccccCcc
Q 038715 168 RPLSMSSVGVMVSSNL 183 (332)
Q Consensus 168 k~~~C~~C~k~F~~~~ 183 (332)
-|+.|..|++.|=..-
T Consensus 12 ~~~~C~~C~~~FC~~H 27 (43)
T PF01428_consen 12 LPFKCKHCGKSFCLKH 27 (43)
T ss_dssp SHEE-TTTS-EE-TTT
T ss_pred CCeECCCCCcccCccc
Confidence 3899999999987553
No 160
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=23.98 E-value=42 Score=21.07 Aligned_cols=8 Identities=0% Similarity=-0.072 Sum_probs=4.0
Q ss_pred ceeccccc
Q 038715 169 PLSMSSVG 176 (332)
Q Consensus 169 ~~~C~~C~ 176 (332)
.|+|..|+
T Consensus 37 ~~~C~~C~ 44 (46)
T PF12760_consen 37 RYRCKACR 44 (46)
T ss_pred eEECCCCC
Confidence 45555554
No 161
>PF04606 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: IPR007684 This entry is represented by Bacteriophage P2, Ogr. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a viral family of phage zinc-binding transcriptional activators, which also contains cryptic members in some bacterial genomes []. The P4 phage delta protein contains two such domains attached covalently, while the P2 phage Ogr proteins possess one domain but function as dimers. All the members of this family have the following consensus sequence: C-X(2)-C-X(3)-A-(X)2-R-X(15)-C-X(4)-C-X(3)-F [].; GO: 0006355 regulation of transcription, DNA-dependent
Probab=23.93 E-value=22 Score=22.58 Aligned_cols=12 Identities=8% Similarity=0.124 Sum_probs=5.9
Q ss_pred eeccc--ccccccC
Q 038715 170 LSMSS--VGVMVSS 181 (332)
Q Consensus 170 ~~C~~--C~k~F~~ 181 (332)
|+|.. ||..|..
T Consensus 26 ~qC~N~~Cg~tfv~ 39 (47)
T PF04606_consen 26 CQCTNPECGHTFVA 39 (47)
T ss_pred EEECCCcCCCEEEE
Confidence 45533 5555543
No 162
>TIGR00143 hypF [NiFe] hydrogenase maturation protein HypF. A previously described regulatory effect of HypF mutatation is attributable to loss of activity of a regulatory hydrogenase. A zinc finger-like region CXXCX(18)CXXCX(24)CXXCX(18)CXXC region further supported the regulatory hypothesis. However, more recent work (PUBMED:11375153) shows the direct effect is on the activity of expressed hydrogenases with nickel/iron centers, rather than on expression.
Probab=23.82 E-value=49 Score=34.26 Aligned_cols=31 Identities=16% Similarity=0.281 Sum_probs=20.9
Q ss_pred Cce-ecccccccccCcccccccccCCCCccCCCCC
Q 038715 168 RPL-SMSSVGVMVSSNLDPILTSRVSKPYLSSVCG 201 (332)
Q Consensus 168 k~~-~C~~C~k~F~~~~~L~~H~~~~~p~~C~~C~ 201 (332)
+.| -|+.|-+.+.+..+-+.|. .+-.|+.||
T Consensus 116 ~~f~~C~~C~~ey~~p~~rr~h~---~~~~C~~Cg 147 (711)
T TIGR00143 116 ADFPLCPDCAKEYKDPLDRRFHA---QPIACPRCG 147 (711)
T ss_pred CCCcCCHHHHHHhcCCccccCCC---CCccCCCCC
Confidence 344 4888888887776655553 346788888
No 163
>PF03470 zf-XS: XS zinc finger domain; InterPro: IPR005381 This domain is a putative nucleic acid binding zinc finger and is found at the N terminus of proteins that also contain an adjacent XS domain IPR005380 from INTERPRO and in some proteins a C-terminal XH domain IPR005379 from INTERPRO.
Probab=23.77 E-value=89 Score=19.58 Aligned_cols=17 Identities=29% Similarity=0.491 Sum_probs=12.9
Q ss_pred cccChhHHHHHHHHhccc
Q 038715 212 SFTSSTALLQKAAEMGTM 229 (332)
Q Consensus 212 ~f~~~~~L~~H~~~~~~~ 229 (332)
.|. -..|++|+..++..
T Consensus 11 ~Y~-~~~LlqHA~gvg~~ 27 (43)
T PF03470_consen 11 DYK-YRELLQHASGVGAS 27 (43)
T ss_pred cee-hhHHHHHHHhhCcC
Confidence 366 78999999877643
No 164
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=23.73 E-value=58 Score=25.90 Aligned_cols=23 Identities=35% Similarity=0.680 Sum_probs=15.5
Q ss_pred CceecccccccccChhHHHHHHHhcC
Q 038715 4 NRYICEVCHKGFQRDQNLQLHRKGHN 29 (332)
Q Consensus 4 k~~~C~~C~k~f~~~~~L~~H~~~h~ 29 (332)
.--.|-+||+.|.. |++|++.|+
T Consensus 71 d~i~clecGk~~k~---LkrHL~~~~ 93 (132)
T PF05443_consen 71 DYIICLECGKKFKT---LKRHLRTHH 93 (132)
T ss_dssp S-EE-TBT--EESB---HHHHHHHTT
T ss_pred CeeEEccCCcccch---HHHHHHHcc
Confidence 34679999999974 599999996
No 165
>PF10263 SprT-like: SprT-like family; InterPro: IPR006640 This is a family of uncharacterised bacterial proteins which includes Escherichia coli SprT (P39902 from SWISSPROT). SprT is described as a regulator of bolA gene in stationary phase []. The majority of members contain the metallopeptidase zinc binding signature which has a HExxH motif, however there is no evidence for them being metallopeptidases.
Probab=23.16 E-value=43 Score=27.01 Aligned_cols=27 Identities=26% Similarity=0.330 Sum_probs=18.4
Q ss_pred ceecccccccccCcccccccccC-CCCccCCCCC
Q 038715 169 PLSMSSVGVMVSSNLDPILTSRV-SKPYLSSVCG 201 (332)
Q Consensus 169 ~~~C~~C~k~F~~~~~L~~H~~~-~~p~~C~~C~ 201 (332)
.|.|..|+..+. +|.++ ...|.|..|+
T Consensus 123 ~~~C~~C~~~~~------r~~~~~~~~~~C~~C~ 150 (157)
T PF10263_consen 123 VYRCPSCGREYK------RHRRSKRKRYRCGRCG 150 (157)
T ss_pred EEEcCCCCCEee------eecccchhhEECCCCC
Confidence 678888887763 34443 3458888888
No 166
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=22.99 E-value=32 Score=21.02 Aligned_cols=10 Identities=10% Similarity=0.003 Sum_probs=5.6
Q ss_pred eecccccccc
Q 038715 170 LSMSSVGVMV 179 (332)
Q Consensus 170 ~~C~~C~k~F 179 (332)
|.|..|+..|
T Consensus 29 y~C~~C~~~w 38 (40)
T smart00440 29 YVCTKCGHRW 38 (40)
T ss_pred EEeCCCCCEe
Confidence 5566665544
No 167
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=22.78 E-value=51 Score=25.53 Aligned_cols=28 Identities=14% Similarity=0.222 Sum_probs=18.4
Q ss_pred CCCCceecccccccccCcccccccccCCCCc-cCCCCC
Q 038715 165 NSLRPLSMSSVGVMVSSNLDPILTSRVSKPY-LSSVCG 201 (332)
Q Consensus 165 ~~~k~~~C~~C~k~F~~~~~L~~H~~~~~p~-~C~~C~ 201 (332)
.-+-.+.|..|+..|..... .| .||.||
T Consensus 67 ~vp~~~~C~~Cg~~~~~~~~---------~~~~CP~Cg 95 (117)
T PRK00564 67 DEKVELECKDCSHVFKPNAL---------DYGVCEKCH 95 (117)
T ss_pred ecCCEEEhhhCCCccccCCc---------cCCcCcCCC
Confidence 33446789999877765432 23 499998
No 168
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=21.55 E-value=51 Score=26.78 Aligned_cols=17 Identities=12% Similarity=-0.019 Sum_probs=11.5
Q ss_pred CceecccccccccCccc
Q 038715 168 RPLSMSSVGVMVSSNLD 184 (332)
Q Consensus 168 k~~~C~~C~k~F~~~~~ 184 (332)
+.-.|+.|+..|++...
T Consensus 27 RRReC~~C~~RFTTfE~ 43 (156)
T COG1327 27 RRRECLECGERFTTFER 43 (156)
T ss_pred hhhcccccccccchhhe
Confidence 35567788877777653
No 169
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=21.37 E-value=88 Score=27.64 Aligned_cols=60 Identities=20% Similarity=0.331 Sum_probs=34.5
Q ss_pred CCcceecCCCCCCCCCCCCccCChhhHhhhhccccCCCccccccChhhhcCchhhHHHHHHhCCCCeeee-cCCccccch
Q 038715 43 KKGVYVCPKPNCVHHHPSRALGDLTGVKKHFCRKHGEKKWKCDKCSKCYAVQSDWKAHTKICGTREHRCD-CGIIFSSQN 121 (332)
Q Consensus 43 ~~~~~~C~~C~C~~~~~~~~f~~~~~L~~H~~~h~~ek~~~C~~C~~~f~~~~~L~~H~~~h~~k~~~C~-C~k~f~~~~ 121 (332)
..+.|.|..| ...+ -.++-.....-.|..|.+.|.--..= +..|--.|.|. |+..|..-.
T Consensus 109 ~drqFaC~~C-------d~~W--------wRrvp~rKeVSRCr~C~~rYDPVP~d----kmwG~aef~C~~C~h~F~G~~ 169 (278)
T PF15135_consen 109 VDRQFACSSC-------DHMW--------WRRVPQRKEVSRCRKCRKRYDPVPCD----KMWGIAEFHCPKCRHNFRGFA 169 (278)
T ss_pred cceeeecccc-------chHH--------HhccCcccccccccccccccCCCccc----cccceeeeecccccccchhhh
Confidence 4577888888 4321 12333333345788887776544310 11355568887 888888654
No 170
>PF14690 zf-ISL3: zinc-finger of transposase IS204/IS1001/IS1096/IS1165
Probab=20.59 E-value=40 Score=21.01 Aligned_cols=7 Identities=0% Similarity=-0.078 Sum_probs=3.2
Q ss_pred ccCCCCc
Q 038715 143 STDSDSN 149 (332)
Q Consensus 143 ~~c~~c~ 149 (332)
..|+.|+
T Consensus 3 ~~Cp~Cg 9 (47)
T PF14690_consen 3 PRCPHCG 9 (47)
T ss_pred ccCCCcC
Confidence 3444444
No 171
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=20.57 E-value=47 Score=21.48 Aligned_cols=18 Identities=17% Similarity=0.394 Sum_probs=14.3
Q ss_pred CCceecccccccccChhH
Q 038715 3 TNRYICEVCHKGFQRDQN 20 (332)
Q Consensus 3 ~k~~~C~~C~k~f~~~~~ 20 (332)
++.+.|..||..|.-...
T Consensus 2 Dk~l~C~dCg~~FvfTa~ 19 (49)
T PF13451_consen 2 DKTLTCKDCGAEFVFTAG 19 (49)
T ss_pred CeeEEcccCCCeEEEehh
Confidence 578999999998875443
No 172
>PRK04351 hypothetical protein; Provisional
Probab=20.39 E-value=62 Score=26.29 Aligned_cols=27 Identities=22% Similarity=0.328 Sum_probs=19.0
Q ss_pred ceecccccccccCcccccccccC-CCCccCCCCC
Q 038715 169 PLSMSSVGVMVSSNLDPILTSRV-SKPYLSSVCG 201 (332)
Q Consensus 169 ~~~C~~C~k~F~~~~~L~~H~~~-~~p~~C~~C~ 201 (332)
.|.|..|+..+.+ +.+. ...|.|..|+
T Consensus 112 ~Y~C~~Cg~~~~r------~Rr~n~~~yrCg~C~ 139 (149)
T PRK04351 112 LYECQSCGQQYLR------KRRINTKRYRCGKCR 139 (149)
T ss_pred EEECCCCCCEeee------eeecCCCcEEeCCCC
Confidence 5888888876643 2333 5778898888
No 173
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=20.21 E-value=68 Score=20.92 Aligned_cols=28 Identities=7% Similarity=0.014 Sum_probs=15.5
Q ss_pred ceecccccccccCcccccccccCCCCccCCCC
Q 038715 169 PLSMSSVGVMVSSNLDPILTSRVSKPYLSSVC 200 (332)
Q Consensus 169 ~~~C~~C~k~F~~~~~L~~H~~~~~p~~C~~C 200 (332)
-++|+.|+..|...-..+. .....|+.|
T Consensus 28 ~W~C~~Cgh~w~~~v~~R~----~~~~~CP~C 55 (55)
T PF14311_consen 28 WWKCPKCGHEWKASVNDRT----RRGKGCPYC 55 (55)
T ss_pred EEECCCCCCeeEccHhhhc----cCCCCCCCC
Confidence 3677777777766544333 233445544
Done!