Query 038358
Match_columns 312
No_of_seqs 269 out of 2962
Neff 8.9
Searched_HMMs 46136
Date Fri Mar 29 10:11:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038358.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038358hhsearch_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 1.7E-27 3.8E-32 202.0 8.4 135 76-266 128-265 (279)
2 KOG2462 C2H2-type Zn-finger pr 99.9 1.5E-22 3.3E-27 172.0 8.2 111 71-240 154-264 (279)
3 KOG1074 Transcriptional repres 99.8 1.3E-19 2.7E-24 173.2 10.8 53 77-129 352-405 (958)
4 KOG3608 Zn finger proteins [Ge 99.8 3.5E-19 7.6E-24 155.3 4.4 169 78-266 177-374 (467)
5 KOG3576 Ovo and related transc 99.7 8.9E-17 1.9E-21 130.5 6.5 123 74-268 113-236 (267)
6 KOG3608 Zn finger proteins [Ge 99.7 5.2E-18 1.1E-22 148.0 -1.3 140 74-244 233-377 (467)
7 KOG1074 Transcriptional repres 99.7 4.2E-17 9.1E-22 156.1 3.2 81 179-272 606-696 (958)
8 KOG3623 Homeobox transcription 99.4 4.3E-14 9.3E-19 133.7 2.6 104 79-228 211-326 (1007)
9 KOG3576 Ovo and related transc 99.4 2.3E-14 5E-19 116.5 -0.3 81 176-269 115-198 (267)
10 KOG3623 Homeobox transcription 99.4 1.3E-13 2.8E-18 130.5 1.8 71 136-225 894-964 (1007)
11 PLN03086 PRLI-interacting fact 99.1 3.8E-10 8.1E-15 107.6 9.3 149 79-266 408-562 (567)
12 PHA00733 hypothetical protein 99.0 2.2E-10 4.8E-15 89.7 3.0 81 176-269 38-124 (128)
13 PLN03086 PRLI-interacting fact 98.8 6.5E-09 1.4E-13 99.3 7.7 114 80-239 435-560 (567)
14 PHA00733 hypothetical protein 98.8 3.7E-09 8.1E-14 82.8 3.9 87 76-203 38-124 (128)
15 PHA02768 hypothetical protein; 98.7 8.3E-09 1.8E-13 67.1 2.7 42 177-225 4-45 (55)
16 KOG3993 Transcription factor ( 98.6 2E-08 4.4E-13 90.5 2.7 173 77-270 266-485 (500)
17 PF13465 zf-H2C2_2: Zinc-finge 98.6 3.9E-08 8.5E-13 54.6 2.4 26 163-190 1-26 (26)
18 PHA02768 hypothetical protein; 98.6 2.8E-08 6E-13 64.7 1.6 43 137-195 6-48 (55)
19 KOG3993 Transcription factor ( 98.5 4.6E-08 1E-12 88.2 2.2 110 136-271 267-383 (500)
20 PF13465 zf-H2C2_2: Zinc-finge 98.3 2.5E-07 5.4E-12 51.3 1.1 25 193-222 1-25 (26)
21 PHA00732 hypothetical protein 98.2 8.8E-07 1.9E-11 63.1 2.2 46 212-268 2-48 (79)
22 PHA00616 hypothetical protein 98.0 2.3E-06 5.1E-11 53.0 1.4 30 178-207 1-30 (44)
23 PF00096 zf-C2H2: Zinc finger, 98.0 2.8E-06 6E-11 45.6 1.4 23 245-267 1-23 (23)
24 PHA00732 hypothetical protein 98.0 5.2E-06 1.1E-10 59.1 2.6 42 155-204 8-50 (79)
25 PF00096 zf-C2H2: Zinc finger, 97.7 1.9E-05 4.2E-10 42.2 1.9 23 179-201 1-23 (23)
26 PHA00616 hypothetical protein 97.7 1.2E-05 2.7E-10 49.8 1.1 36 136-185 1-36 (44)
27 PF05605 zf-Di19: Drought indu 97.7 6.6E-05 1.4E-09 49.5 4.0 44 155-202 9-53 (54)
28 PF13894 zf-C2H2_4: C2H2-type 97.6 2.8E-05 6.1E-10 41.8 1.6 24 245-268 1-24 (24)
29 PF05605 zf-Di19: Drought indu 97.5 0.00011 2.3E-09 48.5 3.7 27 178-205 2-29 (54)
30 PF13912 zf-C2H2_6: C2H2-type 97.4 7.6E-05 1.7E-09 41.6 1.7 25 245-269 2-26 (27)
31 PF13894 zf-C2H2_4: C2H2-type 97.3 0.00016 3.5E-09 38.7 2.1 24 179-202 1-24 (24)
32 PF13912 zf-C2H2_6: C2H2-type 97.3 0.00017 3.6E-09 40.2 2.1 26 178-203 1-26 (27)
33 PF12756 zf-C2H2_2: C2H2 type 97.2 0.0002 4.3E-09 53.2 1.9 71 180-267 1-73 (100)
34 PF12756 zf-C2H2_2: C2H2 type 97.1 0.00037 8E-09 51.7 2.9 73 80-201 1-73 (100)
35 smart00355 ZnF_C2H2 zinc finge 97.0 0.00033 7.1E-09 38.1 1.5 24 245-268 1-24 (26)
36 PF09237 GAGA: GAGA factor; I 96.9 0.00067 1.5E-08 43.0 2.3 41 165-206 12-52 (54)
37 COG5189 SFP1 Putative transcri 96.7 0.00065 1.4E-08 59.7 1.0 58 131-198 344-418 (423)
38 smart00355 ZnF_C2H2 zinc finge 96.7 0.0015 3.2E-08 35.4 2.1 25 179-203 1-25 (26)
39 PF12874 zf-met: Zinc-finger o 96.5 0.0015 3.2E-08 35.5 1.4 23 245-267 1-23 (25)
40 KOG2231 Predicted E3 ubiquitin 96.4 0.0058 1.3E-07 59.9 5.6 80 157-248 158-240 (669)
41 PF13909 zf-H2C2_5: C2H2-type 96.2 0.0023 5E-08 34.4 1.2 24 245-269 1-24 (24)
42 COG5189 SFP1 Putative transcri 96.2 0.0021 4.5E-08 56.7 1.4 24 176-199 347-372 (423)
43 COG5236 Uncharacterized conser 96.2 0.01 2.2E-07 53.0 5.6 138 78-266 151-303 (493)
44 PF12171 zf-C2H2_jaz: Zinc-fin 96.1 0.0031 6.6E-08 35.0 1.4 22 245-266 2-23 (27)
45 PF12874 zf-met: Zinc-finger o 96.0 0.0048 1E-07 33.4 1.8 23 179-201 1-23 (25)
46 TIGR00622 ssl1 transcription f 95.6 0.028 6E-07 42.5 5.0 85 176-268 13-105 (112)
47 KOG2231 Predicted E3 ubiquitin 95.6 0.021 4.6E-07 56.1 5.4 117 137-268 100-236 (669)
48 PRK04860 hypothetical protein; 95.5 0.007 1.5E-07 49.2 1.8 36 178-222 119-154 (160)
49 PRK04860 hypothetical protein; 95.4 0.01 2.2E-07 48.3 2.1 34 154-192 124-157 (160)
50 PF13909 zf-H2C2_5: C2H2-type 95.1 0.015 3.2E-07 31.1 1.5 23 179-202 1-23 (24)
51 PF12171 zf-C2H2_jaz: Zinc-fin 94.9 0.013 2.9E-07 32.4 1.2 22 179-200 2-23 (27)
52 COG5048 FOG: Zn-finger [Genera 94.9 0.014 3E-07 54.7 1.8 57 136-206 289-351 (467)
53 PF09237 GAGA: GAGA factor; I 94.6 0.028 6E-07 35.8 2.1 29 136-178 24-52 (54)
54 PF13913 zf-C2HC_2: zinc-finge 94.2 0.027 5.9E-07 30.6 1.2 21 245-266 3-23 (25)
55 KOG1146 Homeobox protein [Gene 93.5 0.056 1.2E-06 56.4 3.0 50 211-268 589-642 (1406)
56 PF13913 zf-C2HC_2: zinc-finge 93.1 0.073 1.6E-06 28.9 1.8 21 179-200 3-23 (25)
57 smart00451 ZnF_U1 U1-like zinc 90.9 0.18 3.8E-06 29.5 1.8 23 178-200 3-25 (35)
58 smart00451 ZnF_U1 U1-like zinc 90.9 0.16 3.4E-06 29.7 1.6 22 245-266 4-25 (35)
59 PF10571 UPF0547: Uncharacteri 89.0 0.29 6.2E-06 26.8 1.5 24 213-255 2-25 (26)
60 KOG2893 Zn finger protein [Gen 88.2 0.15 3.2E-06 43.5 0.0 25 245-269 35-60 (341)
61 KOG2186 Cell growth-regulating 87.3 0.33 7.1E-06 41.8 1.6 49 211-269 3-53 (276)
62 PF09986 DUF2225: Uncharacteri 87.2 0.18 3.9E-06 43.2 -0.0 49 176-224 3-61 (214)
63 KOG4173 Alpha-SNAP protein [In 86.8 0.17 3.7E-06 42.1 -0.3 76 177-268 78-171 (253)
64 COG1997 RPL43A Ribosomal prote 86.5 0.41 8.9E-06 34.2 1.5 30 212-257 36-66 (89)
65 COG5048 FOG: Zn-finger [Genera 86.1 0.49 1.1E-05 44.2 2.3 55 177-244 288-348 (467)
66 KOG2893 Zn finger protein [Gen 85.1 0.29 6.2E-06 41.8 0.1 43 155-203 17-60 (341)
67 COG1198 PriA Primosomal protei 83.5 0.65 1.4E-05 46.9 1.9 32 107-143 437-469 (730)
68 KOG2482 Predicted C2H2-type Zn 83.3 1.7 3.7E-05 39.2 4.2 82 178-267 195-357 (423)
69 PHA00626 hypothetical protein 81.8 0.88 1.9E-05 29.6 1.3 13 245-257 24-36 (59)
70 KOG1146 Homeobox protein [Gene 81.8 0.67 1.5E-05 48.9 1.3 75 176-274 1282-1358(1406)
71 COG4049 Uncharacterized protei 81.6 0.75 1.6E-05 29.9 1.0 26 175-200 14-39 (65)
72 COG5236 Uncharacterized conser 81.5 0.8 1.7E-05 41.3 1.5 91 161-265 166-272 (493)
73 PF14353 CpXC: CpXC protein 79.2 0.78 1.7E-05 35.8 0.6 22 245-266 39-60 (128)
74 COG2888 Predicted Zn-ribbon RN 78.0 1.6 3.4E-05 28.9 1.6 8 245-252 51-58 (61)
75 COG4049 Uncharacterized protei 76.9 0.87 1.9E-05 29.6 0.2 24 245-268 18-42 (65)
76 cd00350 rubredoxin_like Rubred 76.8 2 4.3E-05 24.9 1.7 11 179-189 2-12 (33)
77 smart00614 ZnF_BED BED zinc fi 76.7 1.6 3.4E-05 27.9 1.4 24 245-268 19-48 (50)
78 PF09538 FYDLN_acid: Protein o 75.7 2.3 4.9E-05 32.2 2.2 32 212-259 10-41 (108)
79 PF12013 DUF3505: Protein of u 75.6 1.8 3.9E-05 32.7 1.7 30 240-269 76-109 (109)
80 KOG2807 RNA polymerase II tran 74.8 4.2 9E-05 36.6 3.9 74 176-268 288-369 (378)
81 PRK00464 nrdR transcriptional 74.5 1.3 2.9E-05 35.7 0.8 16 245-260 29-44 (154)
82 TIGR00622 ssl1 transcription f 73.8 5.9 0.00013 30.1 4.0 39 180-225 57-95 (112)
83 KOG2186 Cell growth-regulating 73.7 2.1 4.5E-05 37.0 1.7 38 160-201 14-51 (276)
84 KOG4377 Zn-finger protein [Gen 71.8 4.5 9.8E-05 37.5 3.5 25 245-269 402-428 (480)
85 PF13719 zinc_ribbon_5: zinc-r 71.6 2.9 6.3E-05 24.9 1.6 33 212-255 3-36 (37)
86 PF03107 C1_2: C1 domain; Int 71.6 3.7 8E-05 23.1 1.9 21 212-251 1-22 (30)
87 PF12013 DUF3505: Protein of u 71.5 6.8 0.00015 29.5 4.0 25 179-203 81-109 (109)
88 PF02892 zf-BED: BED zinc fing 70.3 2.4 5.2E-05 26.2 1.1 20 245-264 17-40 (45)
89 smart00834 CxxC_CXXC_SSSS Puta 70.2 1.7 3.7E-05 26.2 0.4 13 178-190 5-17 (41)
90 PRK00398 rpoP DNA-directed RNA 69.4 3.5 7.7E-05 25.8 1.7 10 245-254 22-31 (46)
91 TIGR02098 MJ0042_CXXC MJ0042 f 69.0 2.9 6.2E-05 24.9 1.2 11 245-255 26-36 (38)
92 PF09986 DUF2225: Uncharacteri 68.5 1.9 4.1E-05 36.9 0.4 14 211-224 5-18 (214)
93 PF01780 Ribosomal_L37ae: Ribo 67.2 1.8 4E-05 31.4 0.1 17 240-256 48-65 (90)
94 KOG1280 Uncharacterized conser 66.5 2 4.3E-05 38.9 0.2 40 176-219 77-117 (381)
95 PRK14873 primosome assembly pr 66.4 2.7 5.9E-05 42.3 1.1 15 107-121 385-399 (665)
96 TIGR00595 priA primosomal prot 66.0 3.3 7.2E-05 40.3 1.6 32 107-143 215-247 (505)
97 PF13717 zinc_ribbon_4: zinc-r 65.4 4.8 0.0001 23.8 1.6 33 212-255 3-36 (36)
98 PRK14890 putative Zn-ribbon RN 65.0 5.5 0.00012 26.4 1.9 8 245-252 49-56 (59)
99 smart00659 RPOLCX RNA polymera 65.0 5 0.00011 25.0 1.7 12 212-223 3-14 (44)
100 cd00729 rubredoxin_SM Rubredox 64.5 4.1 8.9E-05 23.8 1.2 10 179-188 3-12 (34)
101 smart00531 TFIIE Transcription 64.3 4.4 9.6E-05 32.4 1.7 10 245-254 124-133 (147)
102 TIGR02605 CxxC_CxxC_SSSS putat 63.5 2.8 6.1E-05 26.9 0.4 13 178-190 5-17 (52)
103 TIGR00280 L37a ribosomal prote 63.1 4 8.6E-05 29.7 1.1 18 241-258 49-67 (91)
104 TIGR00373 conserved hypothetic 62.4 9.1 0.0002 31.1 3.3 34 176-223 107-140 (158)
105 PF05290 Baculo_IE-1: Baculovi 61.7 8.5 0.00018 30.0 2.8 40 176-225 78-135 (140)
106 smart00734 ZnF_Rad18 Rad18-lik 61.7 5.2 0.00011 21.8 1.2 19 246-265 3-21 (26)
107 PF05443 ROS_MUCR: ROS/MUCR tr 61.6 4 8.8E-05 32.0 1.0 24 245-271 73-96 (132)
108 KOG4317 Predicted Zn-finger pr 61.5 1.6 3.5E-05 38.8 -1.3 43 213-276 9-51 (383)
109 COG1592 Rubrerythrin [Energy p 60.8 4.4 9.5E-05 33.1 1.1 10 176-185 147-156 (166)
110 KOG4167 Predicted DNA-binding 60.5 1.9 4.2E-05 42.7 -1.1 27 245-271 793-819 (907)
111 cd00730 rubredoxin Rubredoxin; 59.8 5.7 0.00012 25.5 1.3 8 245-252 35-42 (50)
112 KOG2272 Focal adhesion protein 59.6 2.6 5.6E-05 36.4 -0.4 112 70-195 91-238 (332)
113 PTZ00255 60S ribosomal protein 58.6 5.9 0.00013 28.8 1.3 15 243-257 52-67 (90)
114 PF04438 zf-HIT: HIT zinc fing 58.4 4.7 0.0001 22.8 0.7 13 245-257 14-26 (30)
115 smart00531 TFIIE Transcription 58.4 10 0.00022 30.3 2.8 39 176-223 97-135 (147)
116 PF07649 C1_3: C1-like domain; 58.2 5.2 0.00011 22.4 0.8 10 245-254 16-25 (30)
117 PRK03976 rpl37ae 50S ribosomal 57.6 5.6 0.00012 28.9 1.1 17 241-257 50-67 (90)
118 TIGR02300 FYDLN_acid conserved 57.2 9.6 0.00021 29.5 2.4 34 212-261 10-43 (129)
119 PRK06266 transcription initiat 56.1 11 0.00024 31.2 2.8 34 176-223 115-148 (178)
120 PF15135 UPF0515: Uncharacteri 55.9 11 0.00023 32.8 2.6 29 160-188 91-122 (278)
121 KOG4173 Alpha-SNAP protein [In 55.3 6.4 0.00014 33.0 1.2 48 155-202 113-171 (253)
122 TIGR00373 conserved hypothetic 55.3 4.8 0.0001 32.7 0.5 30 212-255 110-139 (158)
123 PF09416 UPF1_Zn_bind: RNA hel 54.6 17 0.00036 29.2 3.4 45 176-220 12-69 (152)
124 PF15269 zf-C2H2_7: Zinc-finge 54.5 7 0.00015 24.2 1.0 23 245-267 21-43 (54)
125 PRK06266 transcription initiat 54.1 4.8 0.0001 33.4 0.3 31 212-256 118-148 (178)
126 PRK04023 DNA polymerase II lar 52.6 13 0.00028 38.8 3.1 23 212-255 652-674 (1121)
127 PF09332 Mcm10: Mcm10 replicat 51.2 4.4 9.6E-05 37.2 -0.4 44 176-223 250-297 (344)
128 PF07754 DUF1610: Domain of un 50.4 12 0.00025 20.1 1.3 8 245-252 17-24 (24)
129 COG4957 Predicted transcriptio 50.4 7.5 0.00016 30.3 0.8 22 245-269 77-98 (148)
130 PF01363 FYVE: FYVE zinc finge 50.2 7.7 0.00017 26.4 0.8 28 213-257 11-38 (69)
131 PF09538 FYDLN_acid: Protein o 50.0 9.7 0.00021 28.8 1.4 15 177-191 25-39 (108)
132 COG5151 SSL1 RNA polymerase II 49.5 21 0.00046 32.0 3.6 85 176-268 320-412 (421)
133 PRK05580 primosome assembly pr 49.4 8.6 0.00019 39.0 1.3 34 106-143 382-415 (679)
134 KOG2785 C2H2-type Zn-finger pr 49.2 44 0.00095 30.9 5.6 81 73-169 161-241 (390)
135 COG1996 RPC10 DNA-directed RNA 48.9 8.8 0.00019 24.5 0.8 11 212-222 7-17 (49)
136 PF07975 C1_4: TFIIH C1-like d 48.7 5.8 0.00013 25.6 0.0 24 245-268 22-45 (51)
137 KOG4167 Predicted DNA-binding 48.4 3.7 8.1E-05 40.8 -1.3 26 77-102 791-816 (907)
138 PF13878 zf-C2H2_3: zinc-finge 48.4 13 0.00027 22.7 1.5 25 213-243 15-39 (41)
139 PF15269 zf-C2H2_7: Zinc-finge 48.2 22 0.00048 22.1 2.5 23 78-100 20-42 (54)
140 PRK12496 hypothetical protein; 47.8 9.6 0.00021 31.1 1.2 12 212-223 128-139 (164)
141 PF05443 ROS_MUCR: ROS/MUCR tr 46.1 16 0.00034 28.7 2.0 23 78-103 72-94 (132)
142 PF13240 zinc_ribbon_2: zinc-r 45.8 15 0.00031 19.4 1.3 10 214-223 2-11 (23)
143 KOG2785 C2H2-type Zn-finger pr 45.7 15 0.00032 33.9 2.1 46 212-265 167-241 (390)
144 PF03604 DNA_RNApol_7kD: DNA d 45.2 14 0.0003 21.3 1.2 7 245-251 18-24 (32)
145 PF09845 DUF2072: Zn-ribbon co 44.4 16 0.00035 28.5 1.9 14 212-225 2-15 (131)
146 PRK14873 primosome assembly pr 44.1 15 0.00032 37.2 2.0 9 245-253 423-431 (665)
147 cd00065 FYVE FYVE domain; Zinc 44.1 11 0.00025 24.3 0.9 28 213-257 4-31 (57)
148 COG1198 PriA Primosomal protei 44.0 16 0.00035 37.1 2.3 8 213-220 464-471 (730)
149 PRK09678 DNA-binding transcrip 44.0 11 0.00025 26.1 0.9 16 245-260 28-45 (72)
150 PF01286 XPA_N: XPA protein N- 43.9 5.2 0.00011 23.4 -0.7 11 213-223 5-15 (34)
151 PF14446 Prok-RING_1: Prokaryo 43.4 17 0.00036 23.7 1.5 29 213-258 7-35 (54)
152 PRK03824 hypA hydrogenase nick 43.1 12 0.00025 29.5 0.9 15 177-191 69-83 (135)
153 COG1571 Predicted DNA-binding 42.6 17 0.00038 34.2 2.1 31 213-259 352-382 (421)
154 KOG2593 Transcription initiati 42.4 15 0.00033 34.5 1.7 32 212-252 129-161 (436)
155 PF08790 zf-LYAR: LYAR-type C2 42.2 12 0.00025 20.9 0.6 23 245-268 1-23 (28)
156 PF07295 DUF1451: Protein of u 42.0 12 0.00025 30.0 0.8 20 199-219 101-120 (146)
157 KOG2807 RNA polymerase II tran 41.4 41 0.00088 30.5 4.1 24 178-201 345-368 (378)
158 TIGR01206 lysW lysine biosynth 40.9 22 0.00047 23.2 1.8 29 212-255 3-33 (54)
159 PF04959 ARS2: Arsenite-resist 40.8 11 0.00023 32.3 0.4 24 245-268 78-102 (214)
160 PF04216 FdhE: Protein involve 40.3 6.8 0.00015 35.2 -0.9 28 176-222 195-222 (290)
161 smart00154 ZnF_AN1 AN1-like Zi 40.2 25 0.00054 21.1 1.9 13 245-257 13-25 (39)
162 smart00440 ZnF_C2C2 C2C2 Zinc 40.1 13 0.00028 22.6 0.6 11 245-255 29-39 (40)
163 PF06524 NOA36: NOA36 protein; 40.0 19 0.00042 31.4 1.8 13 131-143 137-149 (314)
164 PF04959 ARS2: Arsenite-resist 39.6 12 0.00025 32.1 0.5 30 176-205 75-104 (214)
165 PF13248 zf-ribbon_3: zinc-rib 39.2 23 0.00051 19.1 1.5 9 212-220 3-11 (26)
166 PRK03681 hypA hydrogenase nick 39.1 15 0.00033 28.0 1.0 7 245-251 88-94 (114)
167 KOG3362 Predicted BBOX Zn-fing 38.1 12 0.00026 29.6 0.3 22 245-266 130-151 (156)
168 smart00064 FYVE Protein presen 37.0 17 0.00037 24.5 0.9 28 213-257 12-39 (68)
169 KOG0801 Predicted E3 ubiquitin 36.8 11 0.00024 30.3 -0.1 38 234-272 128-165 (205)
170 PRK04023 DNA polymerase II lar 36.6 33 0.00072 35.9 3.2 10 78-87 626-635 (1121)
171 PRK00564 hypA hydrogenase nick 36.3 19 0.0004 27.6 1.1 10 179-188 72-81 (117)
172 KOG2907 RNA polymerase I trans 36.1 20 0.00043 27.1 1.2 12 245-256 103-114 (116)
173 COG2331 Uncharacterized protei 35.9 7 0.00015 27.2 -1.1 10 245-254 34-43 (82)
174 KOG0782 Predicted diacylglycer 35.7 11 0.00023 36.7 -0.4 54 190-258 237-290 (1004)
175 PF00301 Rubredoxin: Rubredoxi 35.6 25 0.00054 22.2 1.4 11 177-187 33-43 (47)
176 PRK12380 hydrogenase nickel in 35.6 18 0.00039 27.5 0.9 7 245-251 87-93 (113)
177 PF08274 PhnA_Zn_Ribbon: PhnA 35.4 18 0.00039 20.5 0.7 8 245-252 20-27 (30)
178 PF01096 TFIIS_C: Transcriptio 33.8 11 0.00023 22.7 -0.5 10 245-254 29-38 (39)
179 KOG2482 Predicted C2H2-type Zn 33.3 24 0.00053 32.1 1.5 24 78-101 195-218 (423)
180 PF09723 Zn-ribbon_8: Zinc rib 33.1 20 0.00044 21.9 0.7 15 245-259 6-20 (42)
181 TIGR00100 hypA hydrogenase nic 32.8 22 0.00048 27.1 1.0 11 179-189 71-81 (115)
182 KOG1701 Focal adhesion adaptor 32.2 8.6 0.00019 35.9 -1.5 81 178-267 360-456 (468)
183 COG3364 Zn-ribbon containing p 32.0 31 0.00067 25.6 1.6 15 211-225 2-16 (112)
184 PRK00432 30S ribosomal protein 32.0 34 0.00073 21.9 1.6 11 245-255 38-48 (50)
185 COG3677 Transposase and inacti 31.9 36 0.00078 26.6 2.1 12 245-256 54-65 (129)
186 KOG2071 mRNA cleavage and poly 31.9 56 0.0012 32.1 3.7 31 73-103 413-443 (579)
187 TIGR00595 priA primosomal prot 31.7 32 0.00069 33.6 2.2 11 213-223 242-252 (505)
188 PF06524 NOA36: NOA36 protein; 30.1 22 0.00048 31.1 0.6 42 100-143 137-178 (314)
189 PF11781 RRN7: RNA polymerase 29.8 32 0.00069 20.3 1.1 11 213-223 10-20 (36)
190 PF01155 HypA: Hydrogenase exp 28.0 15 0.00032 28.0 -0.7 12 212-223 71-82 (113)
191 smart00290 ZnF_UBP Ubiquitin C 27.0 46 0.00099 20.8 1.6 27 245-272 12-38 (50)
192 PRK14714 DNA polymerase II lar 26.9 57 0.0012 35.2 3.1 11 212-222 693-703 (1337)
193 COG5152 Uncharacterized conser 26.5 23 0.00051 29.6 0.2 44 136-187 196-239 (259)
194 KOG4377 Zn-finger protein [Gen 26.3 83 0.0018 29.5 3.6 80 176-268 269-369 (480)
195 KOG2593 Transcription initiati 26.2 45 0.00098 31.4 2.0 37 176-220 126-162 (436)
196 KOG0978 E3 ubiquitin ligase in 25.0 18 0.00039 36.4 -0.9 18 177-194 677-694 (698)
197 KOG3408 U1-like Zn-finger-cont 25.0 33 0.00072 26.3 0.8 22 245-266 58-79 (129)
198 COG3357 Predicted transcriptio 24.7 41 0.0009 24.4 1.1 12 176-187 74-85 (97)
199 COG1655 Uncharacterized protei 24.2 17 0.00036 31.2 -1.1 44 176-219 17-70 (267)
200 PF08271 TF_Zn_Ribbon: TFIIB z 24.1 38 0.00082 20.6 0.8 10 245-254 20-29 (43)
201 COG5151 SSL1 RNA polymerase II 23.8 72 0.0016 28.7 2.7 27 176-202 386-412 (421)
202 COG1439 Predicted nucleic acid 23.6 35 0.00075 28.2 0.7 12 212-223 140-151 (177)
203 KOG0402 60S ribosomal protein 23.5 39 0.00084 24.1 0.8 12 245-256 55-66 (92)
204 KOG1842 FYVE finger-containing 23.4 39 0.00084 32.0 1.0 28 245-272 16-44 (505)
205 KOG0782 Predicted diacylglycer 23.4 28 0.00061 34.0 0.1 42 218-260 225-269 (1004)
206 smart00132 LIM Zinc-binding do 23.3 38 0.00083 19.3 0.7 14 242-255 24-38 (39)
207 smart00661 RPOL9 RNA polymeras 23.2 49 0.0011 20.8 1.2 15 245-259 21-35 (52)
208 KOG2857 Predicted MYND Zn-fing 23.1 95 0.0021 24.6 2.9 21 245-265 18-38 (157)
209 PRK05580 primosome assembly pr 22.9 58 0.0012 33.1 2.2 10 213-222 410-419 (679)
210 PRK04351 hypothetical protein; 22.7 42 0.0009 26.9 1.0 33 210-257 111-145 (149)
211 smart00731 SprT SprT homologue 22.5 45 0.00098 26.4 1.2 32 211-255 112-144 (146)
212 KOG0717 Molecular chaperone (D 22.3 44 0.00094 31.9 1.1 21 245-265 293-313 (508)
213 PF12773 DZR: Double zinc ribb 22.3 82 0.0018 19.6 2.1 10 180-189 14-23 (50)
214 cd02343 ZZ_EF Zinc finger, ZZ 22.0 36 0.00079 21.6 0.4 19 249-267 25-43 (48)
215 KOG0696 Serine/threonine prote 21.1 31 0.00068 32.7 -0.1 47 164-218 81-128 (683)
216 COG4530 Uncharacterized protei 20.8 76 0.0017 23.9 1.9 20 176-196 24-43 (129)
217 PRK14714 DNA polymerase II lar 20.7 79 0.0017 34.2 2.7 8 136-143 692-699 (1337)
218 PF03811 Zn_Tnp_IS1: InsA N-te 20.4 55 0.0012 19.3 0.9 27 212-250 6-35 (36)
219 COG4640 Predicted membrane pro 20.1 70 0.0015 29.9 1.9 18 245-262 16-33 (465)
220 PF01428 zf-AN1: AN1-like Zinc 20.1 44 0.00096 20.4 0.5 15 177-191 12-26 (43)
221 cd02341 ZZ_ZZZ3 Zinc finger, Z 20.1 85 0.0018 19.8 1.8 7 245-251 16-22 (48)
No 1
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.94 E-value=1.7e-27 Score=201.97 Aligned_cols=135 Identities=22% Similarity=0.336 Sum_probs=118.9
Q ss_pred CCcccCccccccCCChHHHHHHHHhCCCCCCCCCCCCCCCCCCCCcchhhHHHhhhccCcccccccccchhccCCCCCCC
Q 038358 76 KITRPCSECGKKFWSWKALFGHMRCHPERQWRGINPPPNFRRPASPVKEVTSVENVMTVEDHEVAACLLMLANGDVGVGT 155 (312)
Q Consensus 76 ~~~~~C~~C~k~f~~~~~L~~H~~~H~~~~~~C~~c~~~f~c~~c~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~~~C~ 155 (312)
...|.|..|||.+.+..+|.+|.+.|-.- .-.+.|. |++| +
T Consensus 128 ~~r~~c~eCgk~ysT~snLsrHkQ~H~~~-----~s~ka~~----------------------C~~C------------~ 168 (279)
T KOG2462|consen 128 HPRYKCPECGKSYSTSSNLSRHKQTHRSL-----DSKKAFS----------------------CKYC------------G 168 (279)
T ss_pred CCceeccccccccccccccchhhcccccc-----ccccccc----------------------CCCC------------C
Confidence 34589999999999999999999998731 0022344 4444 8
Q ss_pred ccccCchhHHhHHhhhcCCCCcceecCCCccccCChHHHHhHhhhcCCCCCcccccccCCCCCCCCcCCCCCccccchhh
Q 038358 156 GSFQQGIQVQDTNEVNLGGVSCRFECNSCKKVFGSHQALGGHRASHKHVKGCFAITRSSDGCEIDHDHCSDGIVKENVDD 235 (312)
Q Consensus 156 k~F~~~~~L~~H~~~H~~~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~k~y~~~~~~C~~C~~~f~~~~~~~~~~~~~l 235 (312)
|.|.....|+.|+|+|+ -+++|.+|||.|....-|+.|+|+|+|||| |.|..|+++|.+++ +|
T Consensus 169 K~YvSmpALkMHirTH~----l~c~C~iCGKaFSRPWLLQGHiRTHTGEKP-----F~C~hC~kAFADRS--------NL 231 (279)
T KOG2462|consen 169 KVYVSMPALKMHIRTHT----LPCECGICGKAFSRPWLLQGHIRTHTGEKP-----FSCPHCGKAFADRS--------NL 231 (279)
T ss_pred ceeeehHHHhhHhhccC----CCcccccccccccchHHhhcccccccCCCC-----ccCCcccchhcchH--------HH
Confidence 89999999999999996 499999999999999999999999999999 59999999999977 99
Q ss_pred HhHhhhcCc---eecCccccccCChhhHhhhhhh
Q 038358 236 ERKMMMVLG---HKCSICLRVFSSGQALGGHKRC 266 (312)
Q Consensus 236 ~~H~~~H~~---~~C~~C~k~F~~~~~L~~H~~~ 266 (312)
+.|+++|.+ |+|..|+|.|...++|.+|...
T Consensus 232 RAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 232 RAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred HHHHHhhcCCccccCcchhhHHHHHHHHHHhhhh
Confidence 999999999 9999999999999999999764
No 2
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.87 E-value=1.5e-22 Score=171.96 Aligned_cols=111 Identities=25% Similarity=0.366 Sum_probs=98.1
Q ss_pred CCCCCCCcccCccccccCCChHHHHHHHHhCCCCCCCCCCCCCCCCCCCCcchhhHHHhhhccCcccccccccchhccCC
Q 038358 71 DPGAPKITRPCSECGKKFWSWKALFGHMRCHPERQWRGINPPPNFRRPASPVKEVTSVENVMTVEDHEVAACLLMLANGD 150 (312)
Q Consensus 71 ~~~~~~~~~~C~~C~k~f~~~~~L~~H~~~H~~~~~~C~~c~~~f~c~~c~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~ 150 (312)
.+...++.+.|++|||.|.+...|+.|+++|+- + + +|.+|
T Consensus 154 ~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~l-~---------c----------------------~C~iC-------- 193 (279)
T KOG2462|consen 154 RSLDSKKAFSCKYCGKVYVSMPALKMHIRTHTL-P---------C----------------------ECGIC-------- 193 (279)
T ss_pred ccccccccccCCCCCceeeehHHHhhHhhccCC-C---------c----------------------ccccc--------
Confidence 344457789999999999999999999999983 1 2 34444
Q ss_pred CCCCCccccCchhHHhHHhhhcCCCCcceecCCCccccCChHHHHhHhhhcCCCCCcccccccCCCCCCCCcCCCCCccc
Q 038358 151 VGVGTGSFQQGIQVQDTNEVNLGGVSCRFECNSCKKVFGSHQALGGHRASHKHVKGCFAITRSSDGCEIDHDHCSDGIVK 230 (312)
Q Consensus 151 ~~~C~k~F~~~~~L~~H~~~H~~~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~k~y~~~~~~C~~C~~~f~~~~~~~~~ 230 (312)
||.|.+..-|+-|+|+|+| ||||.|..|+|+|..+++|+.|+++|.+.|.| +|..|+|.|...+
T Consensus 194 ----GKaFSRPWLLQGHiRTHTG--EKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~-----qC~~C~KsFsl~S----- 257 (279)
T KOG2462|consen 194 ----GKAFSRPWLLQGHIRTHTG--EKPFSCPHCGKAFADRSNLRAHMQTHSDVKKH-----QCPRCGKSFALKS----- 257 (279)
T ss_pred ----cccccchHHhhcccccccC--CCCccCCcccchhcchHHHHHHHHhhcCCccc-----cCcchhhHHHHHH-----
Confidence 8999999999999999999 99999999999999999999999999999995 9999999999966
Q ss_pred cchhhHhHhh
Q 038358 231 ENVDDERKMM 240 (312)
Q Consensus 231 ~~~~l~~H~~ 240 (312)
.|.+|..
T Consensus 258 ---yLnKH~E 264 (279)
T KOG2462|consen 258 ---YLNKHSE 264 (279)
T ss_pred ---HHHHhhh
Confidence 7888864
No 3
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.80 E-value=1.3e-19 Score=173.20 Aligned_cols=53 Identities=23% Similarity=0.241 Sum_probs=47.2
Q ss_pred CcccCccccccCCChHHHHHHHHhCCC-CCCCCCCCCCCCCCCCCcchhhHHHh
Q 038358 77 ITRPCSECGKKFWSWKALFGHMRCHPE-RQWRGINPPPNFRRPASPVKEVTSVE 129 (312)
Q Consensus 77 ~~~~C~~C~k~f~~~~~L~~H~~~H~~-~~~~C~~c~~~f~c~~c~~~~~~~~~ 129 (312)
..++|.+|.|.|.+.+.|+.|+|.|+| +||+|..||..|..+-.|..|+.+|.
T Consensus 352 ~khkCr~CakvfgS~SaLqiHlRSHTGERPfqCnvCG~~FSTkGNLKvH~~rH~ 405 (958)
T KOG1074|consen 352 FKHKCRFCAKVFGSDSALQIHLRSHTGERPFQCNVCGNRFSTKGNLKVHFQRHR 405 (958)
T ss_pred ccchhhhhHhhcCchhhhhhhhhccCCCCCeeecccccccccccceeeeeeecc
Confidence 357899999999999999999999996 89999999999999888776666655
No 4
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.76 E-value=3.5e-19 Score=155.29 Aligned_cols=169 Identities=18% Similarity=0.279 Sum_probs=118.6
Q ss_pred cccCc--cccccCCChHHHHHHHHhCCC-CCCCCCCCCCCCCCCCCcchhhHHHhhhcc---CcccccccccchhccCCC
Q 038358 78 TRPCS--ECGKKFWSWKALFGHMRCHPE-RQWRGINPPPNFRRPASPVKEVTSVENVMT---VEDHEVAACLLMLANGDV 151 (312)
Q Consensus 78 ~~~C~--~C~k~f~~~~~L~~H~~~H~~-~~~~C~~c~~~f~c~~c~~~~~~~~~~~~~---~~~~~C~~C~~~f~~~~~ 151 (312)
.+.|. .|.+.|.+++.|.+|++.|++ +..-|..||.-|... ..+.-|.+..+ .++|.|..|-+.|++...
T Consensus 177 v~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~----tkl~DH~rRqt~l~~n~fqC~~C~KrFaTekl 252 (467)
T KOG3608|consen 177 VTMCNWAMCTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRTK----TKLFDHLRRQTELNTNSFQCAQCFKRFATEKL 252 (467)
T ss_pred eeeccchhhhhhhccHHHHHHHHHhcCCCeEEecchHHHHhccc----cHHHHHHHhhhhhcCCchHHHHHHHHHhHHHH
Confidence 35555 499999999999999999996 455677777777664 33444444333 348999999777776654
Q ss_pred --------------CCCCccccCchhHHhHHhh-hcCCCCcceecCCCccccCChHHHHhHhhhcCCCCCcccccccCCC
Q 038358 152 --------------GVGTGSFQQGIQVQDTNEV-NLGGVSCRFECNSCKKVFGSHQALGGHRASHKHVKGCFAITRSSDG 216 (312)
Q Consensus 152 --------------~~C~k~F~~~~~L~~H~~~-H~~~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~k~y~~~~~~C~~ 216 (312)
+.|..+....+.|..|++. |.. .|||+|+.|++.|.+.+.|.+|..+|+ +-. |.|+.
T Consensus 253 L~~Hv~rHvn~ykCplCdmtc~~~ssL~~H~r~rHs~--dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~-----y~C~h 324 (467)
T KOG3608|consen 253 LKSHVVRHVNCYKCPLCDMTCSSASSLTTHIRYRHSK--DKPFKCDECDTRCVRESDLAKHVQVHS-KTV-----YQCEH 324 (467)
T ss_pred HHHHHHHhhhcccccccccCCCChHHHHHHHHhhhcc--CCCccccchhhhhccHHHHHHHHHhcc-ccc-----eecCC
Confidence 6667777777777777764 544 777777777777777777777777777 333 36765
Q ss_pred --CCCCCcCCCCCccccchhhHhHhhhcC-c-----eecCccccccCChhhHhhhhhh
Q 038358 217 --CEIDHDHCSDGIVKENVDDERKMMMVL-G-----HKCSICLRVFSSGQALGGHKRC 266 (312)
Q Consensus 217 --C~~~f~~~~~~~~~~~~~l~~H~~~H~-~-----~~C~~C~k~F~~~~~L~~H~~~ 266 (312)
|.++|.... .+++|++.+. | |.|..|++.|.+..+|..|++.
T Consensus 325 ~~C~~s~r~~~--------q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~k 374 (467)
T KOG3608|consen 325 PDCHYSVRTYT--------QMRRHFLEVHEGNNPILYACHCCDRFFTSGKSLSAHLMK 374 (467)
T ss_pred CCCcHHHHHHH--------HHHHHHHHhccCCCCCceeeecchhhhccchhHHHHHHH
Confidence 777766633 7777776433 4 7777788888777777777643
No 5
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.67 E-value=8.9e-17 Score=130.46 Aligned_cols=123 Identities=20% Similarity=0.350 Sum_probs=94.3
Q ss_pred CCCCcccCccccccCCChHHHHHHHHhCCCCCCCCCCCCCCCCCCCCcchhhHHHhhhccCcccccccccchhccCCCCC
Q 038358 74 APKITRPCSECGKKFWSWKALFGHMRCHPERQWRGINPPPNFRRPASPVKEVTSVENVMTVEDHEVAACLLMLANGDVGV 153 (312)
Q Consensus 74 ~~~~~~~C~~C~k~f~~~~~L~~H~~~H~~~~~~C~~c~~~f~c~~c~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~~~ 153 (312)
.....|.|.+|+|.|.....|.+||+.|..- +.|-|..|
T Consensus 113 sd~d~ftCrvCgK~F~lQRmlnrh~kch~~v------------------------------kr~lct~c----------- 151 (267)
T KOG3576|consen 113 SDQDSFTCRVCGKKFGLQRMLNRHLKCHSDV------------------------------KRHLCTFC----------- 151 (267)
T ss_pred CCCCeeeeehhhhhhhHHHHHHHHhhhccHH------------------------------HHHHHhhc-----------
Confidence 3345699999999999999999999988851 12445555
Q ss_pred CCccccCchhHHhHHhhhcCCCCcceecCCCccccCChHHHHhHhhhcCCCC-CcccccccCCCCCCCCcCCCCCccccc
Q 038358 154 GTGSFQQGIQVQDTNEVNLGGVSCRFECNSCKKVFGSHQALGGHRASHKHVK-GCFAITRSSDGCEIDHDHCSDGIVKEN 232 (312)
Q Consensus 154 C~k~F~~~~~L~~H~~~H~~~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~k-~y~~~~~~C~~C~~~f~~~~~~~~~~~ 232 (312)
||.|.....|++|+|+|+| .+||+|..|+++|+++-.|..|.+.-+|.. .|
T Consensus 152 -gkgfndtfdlkrh~rthtg--vrpykc~~c~kaftqrcsleshl~kvhgv~~~y------------------------- 203 (267)
T KOG3576|consen 152 -GKGFNDTFDLKRHTRTHTG--VRPYKCSLCEKAFTQRCSLESHLKKVHGVQHQY------------------------- 203 (267)
T ss_pred -cCcccchhhhhhhhccccC--ccccchhhhhHHHHhhccHHHHHHHHcCchHHH-------------------------
Confidence 7888888899999999999 999999999999999999999987544433 22
Q ss_pred hhhHhHhhhcCceecCccccccCChhhHhhhhhhcc
Q 038358 233 VDDERKMMMVLGHKCSICLRVFSSGQALGGHKRCHW 268 (312)
Q Consensus 233 ~~l~~H~~~H~~~~C~~C~k~F~~~~~L~~H~~~H~ 268 (312)
+++ +|.-.-|.|+.||.+-.....+..|++.|+
T Consensus 204 -ayk--err~kl~vcedcg~t~~~~e~~~~h~~~~h 236 (267)
T KOG3576|consen 204 -AYK--ERRAKLYVCEDCGYTSERPEVYYLHLKLHH 236 (267)
T ss_pred -HHH--HhhhheeeecccCCCCCChhHHHHHHHhcC
Confidence 111 000001888888888888888888888776
No 6
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.66 E-value=5.2e-18 Score=148.03 Aligned_cols=140 Identities=14% Similarity=0.178 Sum_probs=108.7
Q ss_pred CCCCcccCccccccCCChHHHHHHHHhCCCCCCCCCCCCCCCCCCCCcchhhHHHhhh-ccC-cccccccccchhccCCC
Q 038358 74 APKITRPCSECGKKFWSWKALFGHMRCHPERQWRGINPPPNFRRPASPVKEVTSVENV-MTV-EDHEVAACLLMLANGDV 151 (312)
Q Consensus 74 ~~~~~~~C~~C~k~f~~~~~L~~H~~~H~~~~~~C~~c~~~f~c~~c~~~~~~~~~~~-~~~-~~~~C~~C~~~f~~~~~ 151 (312)
....+|.|.+|.|.|.+...|..|++.|.. -|+|..|+....+ ...+.+|++. |.. ++|+|+.|
T Consensus 233 l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn-~ykCplCdmtc~~----~ssL~~H~r~rHs~dkpfKCd~C--------- 298 (467)
T KOG3608|consen 233 LNTNSFQCAQCFKRFATEKLLKSHVVRHVN-CYKCPLCDMTCSS----ASSLTTHIRYRHSKDKPFKCDEC--------- 298 (467)
T ss_pred hcCCchHHHHHHHHHhHHHHHHHHHHHhhh-cccccccccCCCC----hHHHHHHHHhhhccCCCccccch---------
Confidence 344578888888888888888888888874 3445555422222 5677888874 443 39999999
Q ss_pred CCCCccccCchhHHhHHhhhcCCCCcceecCC--CccccCChHHHHhHhhh-cCCCCCcccccccCCCCCCCCcCCCCCc
Q 038358 152 GVGTGSFQQGIQVQDTNEVNLGGVSCRFECNS--CKKVFGSHQALGGHRAS-HKHVKGCFAITRSSDGCEIDHDHCSDGI 228 (312)
Q Consensus 152 ~~C~k~F~~~~~L~~H~~~H~~~~~k~~~C~~--C~~~F~~~~~L~~H~~~-H~~~k~y~~~~~~C~~C~~~f~~~~~~~ 228 (312)
.+.|.+.+.|..|..+|. +..|+|+. |...|.....|.+|++. |-|..| ..|+|..|++.|++..
T Consensus 299 ---d~~c~~esdL~kH~~~HS---~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np---~~Y~CH~Cdr~ft~G~--- 366 (467)
T KOG3608|consen 299 ---DTRCVRESDLAKHVQVHS---KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNP---ILYACHCCDRFFTSGK--- 366 (467)
T ss_pred ---hhhhccHHHHHHHHHhcc---ccceecCCCCCcHHHHHHHHHHHHHHHhccCCCC---Cceeeecchhhhccch---
Confidence 678999999999999997 68899988 99999999999999985 446654 2469999999999955
Q ss_pred cccchhhHhHhhhcCc
Q 038358 229 VKENVDDERKMMMVLG 244 (312)
Q Consensus 229 ~~~~~~l~~H~~~H~~ 244 (312)
+|.+|++.-++
T Consensus 367 -----~L~~HL~kkH~ 377 (467)
T KOG3608|consen 367 -----SLSAHLMKKHG 377 (467)
T ss_pred -----hHHHHHHHhhc
Confidence 88899876555
No 7
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.65 E-value=4.2e-17 Score=156.13 Aligned_cols=81 Identities=21% Similarity=0.311 Sum_probs=76.1
Q ss_pred eecCCCccccCChHHHHhHhhhcCCCCCcccccccCCCCCCCCcCCCCCccccchhhHhHhhhcCc-------eecC---
Q 038358 179 FECNSCKKVFGSHQALGGHRASHKHVKGCFAITRSSDGCEIDHDHCSDGIVKENVDDERKMMMVLG-------HKCS--- 248 (312)
Q Consensus 179 ~~C~~C~~~F~~~~~L~~H~~~H~~~k~y~~~~~~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H~~-------~~C~--- 248 (312)
-+|-+|-+...-.++|+.|.++|+||+| |+|.+||+.|.+++ +|+.|+.+|.. |.|+
T Consensus 606 NqCiiC~rVlSC~saLqmHyrtHtGERP-----FkCKiCgRAFtTkG--------NLkaH~~vHka~p~~R~q~ScP~~~ 672 (958)
T KOG1074|consen 606 NQCIICLRVLSCPSALQMHYRTHTGERP-----FKCKICGRAFTTKG--------NLKAHMSVHKAKPPARVQFSCPSTF 672 (958)
T ss_pred cceeeeeecccchhhhhhhhhcccCcCc-----cccccccchhcccc--------chhhcccccccCccccccccCCchh
Confidence 5899999999999999999999999999 69999999999988 89999999987 9999
Q ss_pred ccccccCChhhHhhhhhhccCCCC
Q 038358 249 ICLRVFSSGQALGGHKRCHWEKGD 272 (312)
Q Consensus 249 ~C~k~F~~~~~L~~H~~~H~~~~~ 272 (312)
+|.+.|.....|..|+|+|.+...
T Consensus 673 ic~~kftn~V~lpQhIriH~~~~~ 696 (958)
T KOG1074|consen 673 ICQKKFTNAVTLPQHIRIHLGGQI 696 (958)
T ss_pred hhcccccccccccceEEeecCCCC
Confidence 999999999999999999996543
No 8
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.43 E-value=4.3e-14 Score=133.71 Aligned_cols=104 Identities=22% Similarity=0.425 Sum_probs=85.7
Q ss_pred ccCccccccCCChHHHHHHHH-hCCCCCCCCCCCCCCCCCCCCcchhhHHHhhhccCcccccccccchhccCCCCCCCcc
Q 038358 79 RPCSECGKKFWSWKALFGHMR-CHPERQWRGINPPPNFRRPASPVKEVTSVENVMTVEDHEVAACLLMLANGDVGVGTGS 157 (312)
Q Consensus 79 ~~C~~C~k~f~~~~~L~~H~~-~H~~~~~~C~~c~~~f~c~~c~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~~~C~k~ 157 (312)
..|.+|.+.+.....|+.|++ +|... ...|.|. .| ..+
T Consensus 211 ltcpycdrgykrltslkeHikyrhekn-------e~nfsC~----------------------lC------------syt 249 (1007)
T KOG3623|consen 211 LTCPYCDRGYKRLTSLKEHIKYRHEKN-------EPNFSCM----------------------LC------------SYT 249 (1007)
T ss_pred hcchhHHHHHHHHHHHHHHHHHHHhhC-------CCCCcch----------------------hh------------hhh
Confidence 689999999999999999987 44421 2224443 33 778
Q ss_pred ccCchhHHhHHhhhcCC-----------CCcceecCCCccccCChHHHHhHhhhcCCCCCcccccccCCCCCCCCcCCCC
Q 038358 158 FQQGIQVQDTNEVNLGG-----------VSCRFECNSCKKVFGSHQALGGHRASHKHVKGCFAITRSSDGCEIDHDHCSD 226 (312)
Q Consensus 158 F~~~~~L~~H~~~H~~~-----------~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~k~y~~~~~~C~~C~~~f~~~~~ 226 (312)
|..+..|.+||.+|... .-+.|+|..|||+|..+-.|+.|+|+|.||||| .|+.|+|+|++.++
T Consensus 250 FAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECgKAFKfKHHLKEHlRIHSGEKPf-----eCpnCkKRFSHSGS 324 (1007)
T KOG3623|consen 250 FAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECGKAFKFKHHLKEHLRIHSGEKPF-----ECPNCKKRFSHSGS 324 (1007)
T ss_pred hhhHHHHHHHHHhhcCCCcccccccchhhhccccccccchhhhhHHHHHhhheeecCCCCc-----CCcccccccccCCc
Confidence 99999999999988531 246799999999999999999999999999995 99999999999885
Q ss_pred Cc
Q 038358 227 GI 228 (312)
Q Consensus 227 ~~ 228 (312)
+.
T Consensus 325 yS 326 (1007)
T KOG3623|consen 325 YS 326 (1007)
T ss_pred cc
Confidence 43
No 9
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.41 E-value=2.3e-14 Score=116.52 Aligned_cols=81 Identities=27% Similarity=0.450 Sum_probs=73.8
Q ss_pred CcceecCCCccccCChHHHHhHhhhcCCCCCcccccccCCCCCCCCcCCCCCccccchhhHhHhhhcCc---eecCcccc
Q 038358 176 SCRFECNSCKKVFGSHQALGGHRASHKHVKGCFAITRSSDGCEIDHDHCSDGIVKENVDDERKMMMVLG---HKCSICLR 252 (312)
Q Consensus 176 ~k~~~C~~C~~~F~~~~~L~~H~~~H~~~k~y~~~~~~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H~~---~~C~~C~k 252 (312)
...|.|.+|+|.|.....|.+|++-|...+-| .|..||+.|.. .++|++|+|+|+| |+|..|+|
T Consensus 115 ~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~-----lct~cgkgfnd--------tfdlkrh~rthtgvrpykc~~c~k 181 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRH-----LCTFCGKGFND--------TFDLKRHTRTHTGVRPYKCSLCEK 181 (267)
T ss_pred CCeeeeehhhhhhhHHHHHHHHhhhccHHHHH-----HHhhccCcccc--------hhhhhhhhccccCccccchhhhhH
Confidence 56799999999999999999999999999885 99999999999 6699999999999 99999999
Q ss_pred ccCChhhHhhhhhhccC
Q 038358 253 VFSSGQALGGHKRCHWE 269 (312)
Q Consensus 253 ~F~~~~~L~~H~~~H~~ 269 (312)
+|.++..|..|++.-+|
T Consensus 182 aftqrcsleshl~kvhg 198 (267)
T KOG3576|consen 182 AFTQRCSLESHLKKVHG 198 (267)
T ss_pred HHHhhccHHHHHHHHcC
Confidence 99999999999854433
No 10
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.37 E-value=1.3e-13 Score=130.48 Aligned_cols=71 Identities=23% Similarity=0.384 Sum_probs=62.9
Q ss_pred ccccccccchhccCCCCCCCccccCchhHHhHHhhhcCCCCcceecCCCccccCChHHHHhHhhhcCCCCCcccccccCC
Q 038358 136 DHEVAACLLMLANGDVGVGTGSFQQGIQVQDTNEVNLGGVSCRFECNSCKKVFGSHQALGGHRASHKHVKGCFAITRSSD 215 (312)
Q Consensus 136 ~~~C~~C~~~f~~~~~~~C~k~F~~~~~L~~H~~~H~~~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~k~y~~~~~~C~ 215 (312)
.|.|++| .|+|...+.|.+|.-.|+| .+||+|.+|.|+|..+-.|..|+|.|.||||| .|+
T Consensus 894 myaCDqC------------DK~FqKqSSLaRHKYEHsG--qRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPf-----QCd 954 (1007)
T KOG3623|consen 894 MYACDQC------------DKAFQKQSSLARHKYEHSG--QRPYQCIICKKAFKHKHHLTEHKRLHSGEKPF-----QCD 954 (1007)
T ss_pred cchHHHH------------HHHHHhhHHHHHhhhhhcC--CCCcccchhhHhhhhhhhhhhhhhhccCCCcc-----hhh
Confidence 6999999 5688888999999999998 99999999999999999999999999999994 777
Q ss_pred CCCCCCcCCC
Q 038358 216 GCEIDHDHCS 225 (312)
Q Consensus 216 ~C~~~f~~~~ 225 (312)
.|+|+|++.+
T Consensus 955 KClKRFSHSG 964 (1007)
T KOG3623|consen 955 KCLKRFSHSG 964 (1007)
T ss_pred hhhhhccccc
Confidence 7777777766
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.09 E-value=3.8e-10 Score=107.63 Aligned_cols=149 Identities=13% Similarity=0.124 Sum_probs=104.1
Q ss_pred ccCccccccCCChHHHHHHHHhCCCCCCCCCC--CCCCCCCCCCcchhhHHHhhhccCcccccccccchhccCCCCCCCc
Q 038358 79 RPCSECGKKFWSWKALFGHMRCHPERQWRGIN--PPPNFRRPASPVKEVTSVENVMTVEDHEVAACLLMLANGDVGVGTG 156 (312)
Q Consensus 79 ~~C~~C~k~f~~~~~L~~H~~~H~~~~~~C~~--c~~~f~c~~c~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~~~C~k 156 (312)
-.|..|..... ...|..|........-.|.. |+..|.- . .-.+.+.|+.| ++
T Consensus 408 V~C~NC~~~i~-l~~l~lHe~~C~r~~V~Cp~~~Cg~v~~r-----~--------el~~H~~C~~C------------gk 461 (567)
T PLN03086 408 VECRNCKHYIP-SRSIALHEAYCSRHNVVCPHDGCGIVLRV-----E--------EAKNHVHCEKC------------GQ 461 (567)
T ss_pred EECCCCCCccc-hhHHHHHHhhCCCcceeCCcccccceeec-----c--------ccccCccCCCC------------CC
Confidence 47999987755 55666887655443334443 4433321 1 11223678888 67
Q ss_pred cccCchhHHhHHhhhcCCCCcceecCCCccccCChHHHHhHhhhcCCCCCcccccccCCCCCCCCcCCCCC-cc-ccchh
Q 038358 157 SFQQGIQVQDTNEVNLGGVSCRFECNSCKKVFGSHQALGGHRASHKHVKGCFAITRSSDGCEIDHDHCSDG-IV-KENVD 234 (312)
Q Consensus 157 ~F~~~~~L~~H~~~H~~~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~k~y~~~~~~C~~C~~~f~~~~~~-~~-~~~~~ 234 (312)
.|. ...|..|+++|+ +++.|+ ||+.+ .+..|..|+.+|.+++++ .|..|++.|....+. .+ .....
T Consensus 462 ~f~-~s~LekH~~~~H----kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi-----~C~fC~~~v~~g~~~~d~~d~~s~ 529 (567)
T PLN03086 462 AFQ-QGEMEKHMKVFH----EPLQCP-CGVVL-EKEQMVQHQASTCPLRLI-----TCRFCGDMVQAGGSAMDVRDRLRG 529 (567)
T ss_pred ccc-hHHHHHHHHhcC----CCccCC-CCCCc-chhHHHhhhhccCCCCce-----eCCCCCCccccCccccchhhhhhh
Confidence 775 578999999984 689999 99765 678999999999999995 999999999532110 00 01237
Q ss_pred hHhHhhhcCc--eecCccccccCChhhHhhhhhh
Q 038358 235 DERKMMMVLG--HKCSICLRVFSSGQALGGHKRC 266 (312)
Q Consensus 235 l~~H~~~H~~--~~C~~C~k~F~~~~~L~~H~~~ 266 (312)
|..|+.++.. +.|..||+.|..+ .|..|+-.
T Consensus 530 Lt~HE~~CG~rt~~C~~Cgk~Vrlr-dm~~H~~~ 562 (567)
T PLN03086 530 MSEHESICGSRTAPCDSCGRSVMLK-EMDIHQIA 562 (567)
T ss_pred HHHHHHhcCCcceEccccCCeeeeh-hHHHHHHH
Confidence 8899998755 9999999998876 56778643
No 12
>PHA00733 hypothetical protein
Probab=98.99 E-value=2.2e-10 Score=89.67 Aligned_cols=81 Identities=14% Similarity=0.125 Sum_probs=67.8
Q ss_pred CcceecCCCccccCChHHHHhH--hh---hcCCCCCcccccccCCCCCCCCcCCCCCccccchhhHhHhhhcCc-eecCc
Q 038358 176 SCRFECNSCKKVFGSHQALGGH--RA---SHKHVKGCFAITRSSDGCEIDHDHCSDGIVKENVDDERKMMMVLG-HKCSI 249 (312)
Q Consensus 176 ~k~~~C~~C~~~F~~~~~L~~H--~~---~H~~~k~y~~~~~~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H~~-~~C~~ 249 (312)
.+++.|.+|.+.|.....|..| ++ .+.+++|| .|+.|++.|.+.+ .|..|+++|.. |.|++
T Consensus 38 ~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy-----~C~~Cgk~Fss~s--------~L~~H~r~h~~~~~C~~ 104 (128)
T PHA00733 38 QKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPY-----VCPLCLMPFSSSV--------SLKQHIRYTEHSKVCPV 104 (128)
T ss_pred hhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCc-----cCCCCCCcCCCHH--------HHHHHHhcCCcCccCCC
Confidence 6889999999999887777666 22 23457784 9999999999955 89999998866 99999
Q ss_pred cccccCChhhHhhhhhhccC
Q 038358 250 CLRVFSSGQALGGHKRCHWE 269 (312)
Q Consensus 250 C~k~F~~~~~L~~H~~~H~~ 269 (312)
|++.|.....|..|++..++
T Consensus 105 CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 105 CGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred CCCccCCHHHHHHHHHHhcC
Confidence 99999999999999977654
No 13
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.85 E-value=6.5e-09 Score=99.30 Aligned_cols=114 Identities=13% Similarity=0.184 Sum_probs=84.4
Q ss_pred cCcc--ccccCCChHHHHHHHHhCCCCCCCCCCCCCCCCCCCCcchhhHHHhhhccCcccccccccchhccCCCCCCCcc
Q 038358 80 PCSE--CGKKFWSWKALFGHMRCHPERQWRGINPPPNFRRPASPVKEVTSVENVMTVEDHEVAACLLMLANGDVGVGTGS 157 (312)
Q Consensus 80 ~C~~--C~k~f~~~~~L~~H~~~H~~~~~~C~~c~~~f~c~~c~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~~~C~k~ 157 (312)
.|+. ||..|. +..|..| +.|..|++.|. ...+..|+.++. .++.|+ | |+.
T Consensus 435 ~Cp~~~Cg~v~~-r~el~~H--------~~C~~Cgk~f~-----~s~LekH~~~~H-kpv~Cp-C------------g~~ 486 (567)
T PLN03086 435 VCPHDGCGIVLR-VEEAKNH--------VHCEKCGQAFQ-----QGEMEKHMKVFH-EPLQCP-C------------GVV 486 (567)
T ss_pred eCCcccccceee-ccccccC--------ccCCCCCCccc-----hHHHHHHHHhcC-CCccCC-C------------CCC
Confidence 5664 888773 2333333 46777777664 255677777763 678888 8 544
Q ss_pred ccCchhHHhHHhhhcCCCCcceecCCCccccC----------ChHHHHhHhhhcCCCCCcccccccCCCCCCCCcCCCCC
Q 038358 158 FQQGIQVQDTNEVNLGGVSCRFECNSCKKVFG----------SHQALGGHRASHKHVKGCFAITRSSDGCEIDHDHCSDG 227 (312)
Q Consensus 158 F~~~~~L~~H~~~H~~~~~k~~~C~~C~~~F~----------~~~~L~~H~~~H~~~k~y~~~~~~C~~C~~~f~~~~~~ 227 (312)
+ .+..|..|+++|.+ ++++.|..|++.|. ....|..|..++ |.+++ .|..||+.+..+
T Consensus 487 ~-~R~~L~~H~~thCp--~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt~-----~C~~Cgk~Vrlr--- 554 (567)
T PLN03086 487 L-EKEQMVQHQASTCP--LRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC-GSRTA-----PCDSCGRSVMLK--- 554 (567)
T ss_pred c-chhHHHhhhhccCC--CCceeCCCCCCccccCccccchhhhhhhHHHHHHhc-CCcce-----EccccCCeeeeh---
Confidence 4 56899999999988 99999999999995 245899999986 88884 999999998873
Q ss_pred ccccchhhHhHh
Q 038358 228 IVKENVDDERKM 239 (312)
Q Consensus 228 ~~~~~~~l~~H~ 239 (312)
.+..|+
T Consensus 555 ------dm~~H~ 560 (567)
T PLN03086 555 ------EMDIHQ 560 (567)
T ss_pred ------hHHHHH
Confidence 556665
No 14
>PHA00733 hypothetical protein
Probab=98.81 E-value=3.7e-09 Score=82.75 Aligned_cols=87 Identities=10% Similarity=0.096 Sum_probs=64.0
Q ss_pred CCcccCccccccCCChHHHHHHHHhCCCCCCCCCCCCCCCCCCCCcchhhHHHhhhccCcccccccccchhccCCCCCCC
Q 038358 76 KITRPCSECGKKFWSWKALFGHMRCHPERQWRGINPPPNFRRPASPVKEVTSVENVMTVEDHEVAACLLMLANGDVGVGT 155 (312)
Q Consensus 76 ~~~~~C~~C~k~f~~~~~L~~H~~~H~~~~~~C~~c~~~f~c~~c~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~~~C~ 155 (312)
.+.+.|.+|.+.|.....|..|.. +..+...+...+|+|++| +
T Consensus 38 ~~~~~~~~~~~~~~~~~~l~~~~~-------------------------l~~~~~~~~~kPy~C~~C------------g 80 (128)
T PHA00733 38 QKRLIRAVVKTLIYNPQLLDESSY-------------------------LYKLLTSKAVSPYVCPLC------------L 80 (128)
T ss_pred hhhHHHHHHhhhccChhhhcchHH-------------------------HHhhcccCCCCCccCCCC------------C
Confidence 345789999988888777766621 111222233345666666 8
Q ss_pred ccccCchhHHhHHhhhcCCCCcceecCCCccccCChHHHHhHhhhcCC
Q 038358 156 GSFQQGIQVQDTNEVNLGGVSCRFECNSCKKVFGSHQALGGHRASHKH 203 (312)
Q Consensus 156 k~F~~~~~L~~H~~~H~~~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~ 203 (312)
+.|.....|..|++.| +.+|.|..|++.|.....|..|+...++
T Consensus 81 k~Fss~s~L~~H~r~h----~~~~~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 81 MPFSSSVSLKQHIRYT----EHSKVCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred CcCCCHHHHHHHHhcC----CcCccCCCCCCccCCHHHHHHHHHHhcC
Confidence 8999999999999987 3579999999999999999999886554
No 15
>PHA02768 hypothetical protein; Provisional
Probab=98.72 E-value=8.3e-09 Score=67.09 Aligned_cols=42 Identities=14% Similarity=0.332 Sum_probs=34.8
Q ss_pred cceecCCCccccCChHHHHhHhhhcCCCCCcccccccCCCCCCCCcCCC
Q 038358 177 CRFECNSCKKVFGSHQALGGHRASHKHVKGCFAITRSSDGCEIDHDHCS 225 (312)
Q Consensus 177 k~~~C~~C~~~F~~~~~L~~H~~~H~~~k~y~~~~~~C~~C~~~f~~~~ 225 (312)
--|+|+.||+.|...++|..|+++|+ ++| +|..|++.|...+
T Consensus 4 ~~y~C~~CGK~Fs~~~~L~~H~r~H~--k~~-----kc~~C~k~f~~~s 45 (55)
T PHA02768 4 LGYECPICGEIYIKRKSMITHLRKHN--TNL-----KLSNCKRISLRTG 45 (55)
T ss_pred cccCcchhCCeeccHHHHHHHHHhcC--Ccc-----cCCcccceecccc
Confidence 35899999999999999999999999 563 7777777776654
No 16
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.60 E-value=2e-08 Score=90.52 Aligned_cols=173 Identities=18% Similarity=0.192 Sum_probs=92.2
Q ss_pred CcccCccccccCCChHHHHHHHHhCC-CCCCCCCCCCCCCCCCCCcchhhHHHhhhccCcccccccccchhccCCCCCCC
Q 038358 77 ITRPCSECGKKFWSWKALFGHMRCHP-ERQWRGINPPPNFRRPASPVKEVTSVENVMTVEDHEVAACLLMLANGDVGVGT 155 (312)
Q Consensus 77 ~~~~C~~C~k~f~~~~~L~~H~~~H~-~~~~~C~~c~~~f~c~~c~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~~~C~ 155 (312)
..|.|..|...|.....|.+|.-.-. ...|+|.+|++.|.|+.++- .|++-|.-++---. -|- .. .
T Consensus 266 GdyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLA----SHRRWHKPR~eaa~-a~~---~P-----~ 332 (500)
T KOG3993|consen 266 GDYICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLA----SHRRWHKPRPEAAK-AGS---PP-----P 332 (500)
T ss_pred HHHHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhh----hhhcccCCchhhhh-cCC---CC-----h
Confidence 35999999999999999999974322 23466667666666665432 22222221100000 000 00 0
Q ss_pred c-cccCchhHHhHHhhhcCCCCcceecCCCccccCChHHHHhHhhhcCCC-CC---------------c-----------
Q 038358 156 G-SFQQGIQVQDTNEVNLGGVSCRFECNSCKKVFGSHQALGGHRASHKHV-KG---------------C----------- 207 (312)
Q Consensus 156 k-~F~~~~~L~~H~~~H~~~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~-k~---------------y----------- 207 (312)
+ .-......+.-.+.-....+-.|.|.+|++.|.+...|++|+.+|..- .+ +
T Consensus 333 k~~~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~ 412 (500)
T KOG3993|consen 333 KQAVETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSS 412 (500)
T ss_pred hhhhhhhhhhhhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccc
Confidence 0 000000000000000001134699999999999999999998876321 10 0
Q ss_pred -----------cc---ccccCCCCCCCCcCCCCCccccchhhHhHhhh-c--CceecCccccccCChhhHhhhhh-hccC
Q 038358 208 -----------FA---ITRSSDGCEIDHDHCSDGIVKENVDDERKMMM-V--LGHKCSICLRVFSSGQALGGHKR-CHWE 269 (312)
Q Consensus 208 -----------~~---~~~~C~~C~~~f~~~~~~~~~~~~~l~~H~~~-H--~~~~C~~C~k~F~~~~~L~~H~~-~H~~ 269 (312)
-+ .-..|+.|+-.+.++++.- .+.|. + .+|.|.+|.-.|.....|.+|+. .|-.
T Consensus 413 a~~~~g~~vl~~a~sael~~pp~~~~ppsss~~sg--------g~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~Hps 484 (500)
T KOG3993|consen 413 ASDSHGDEVLYVAGSAELELPPYDGSPPSSSGSSG--------GYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCHPS 484 (500)
T ss_pred cccccccceeeeeccccccCCCCCCCCcccCCCCC--------ccccccchhhccccccchHhhhcCcchHhHhhhcChH
Confidence 00 0023556665555544211 11111 1 11999999999999999999974 4544
Q ss_pred C
Q 038358 270 K 270 (312)
Q Consensus 270 ~ 270 (312)
+
T Consensus 485 e 485 (500)
T KOG3993|consen 485 E 485 (500)
T ss_pred H
Confidence 3
No 17
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.58 E-value=3.9e-08 Score=54.58 Aligned_cols=26 Identities=19% Similarity=0.520 Sum_probs=21.0
Q ss_pred hHHhHHhhhcCCCCcceecCCCccccCC
Q 038358 163 QVQDTNEVNLGGVSCRFECNSCKKVFGS 190 (312)
Q Consensus 163 ~L~~H~~~H~~~~~k~~~C~~C~~~F~~ 190 (312)
+|.+|+++|+| ++||.|++|++.|.+
T Consensus 1 ~l~~H~~~H~~--~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTG--EKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSS--SSSEEESSSSEEESS
T ss_pred CHHHHhhhcCC--CCCCCCCCCcCeeCc
Confidence 47788888888 888888888888863
No 18
>PHA02768 hypothetical protein; Provisional
Probab=98.55 E-value=2.8e-08 Score=64.66 Aligned_cols=43 Identities=9% Similarity=0.114 Sum_probs=37.7
Q ss_pred cccccccchhccCCCCCCCccccCchhHHhHHhhhcCCCCcceecCCCccccCChHHHH
Q 038358 137 HEVAACLLMLANGDVGVGTGSFQQGIQVQDTNEVNLGGVSCRFECNSCKKVFGSHQALG 195 (312)
Q Consensus 137 ~~C~~C~~~f~~~~~~~C~k~F~~~~~L~~H~~~H~~~~~k~~~C~~C~~~F~~~~~L~ 195 (312)
|+|++| |+.|....+|..|+++|+ ++|+|..|++.|.+.+.|.
T Consensus 6 y~C~~C------------GK~Fs~~~~L~~H~r~H~----k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 6 YECPIC------------GEIYIKRKSMITHLRKHN----TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred cCcchh------------CCeeccHHHHHHHHHhcC----CcccCCcccceecccceeE
Confidence 667777 889999999999999995 6999999999999877664
No 19
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.50 E-value=4.6e-08 Score=88.23 Aligned_cols=110 Identities=18% Similarity=0.325 Sum_probs=70.6
Q ss_pred ccccccccchhccCCCCCCCccccCchhHHhHH--hhhcCCCCcceecCCCccccCChHHHHhHhhhcCCCCCccccccc
Q 038358 136 DHEVAACLLMLANGDVGVGTGSFQQGIQVQDTN--EVNLGGVSCRFECNSCKKVFGSHQALGGHRASHKHVKGCFAITRS 213 (312)
Q Consensus 136 ~~~C~~C~~~f~~~~~~~C~k~F~~~~~L~~H~--~~H~~~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~k~y~~~~~~ 213 (312)
.|.|..| ...|.....|.+|. ++- ...|+|+.|+|.|.--.+|-.|.|.|.-...-
T Consensus 267 dyiCqLC------------K~kYeD~F~LAQHrC~RIV----~vEYrCPEC~KVFsCPANLASHRRWHKPR~ea------ 324 (500)
T KOG3993|consen 267 DYICQLC------------KEKYEDAFALAQHRCPRIV----HVEYRCPECDKVFSCPANLASHRRWHKPRPEA------ 324 (500)
T ss_pred HHHHHHH------------HHhhhhHHHHhhccCCeeE----EeeecCCcccccccCchhhhhhhcccCCchhh------
Confidence 5999999 55677777899996 332 34799999999999999999999999532210
Q ss_pred CCCCCCCCcCCCCCccccchhhHhHhh----hcCc-eecCccccccCChhhHhhhhhhccCCC
Q 038358 214 SDGCEIDHDHCSDGIVKENVDDERKMM----MVLG-HKCSICLRVFSSGQALGGHKRCHWEKG 271 (312)
Q Consensus 214 C~~C~~~f~~~~~~~~~~~~~l~~H~~----~H~~-~~C~~C~k~F~~~~~L~~H~~~H~~~~ 271 (312)
.+.-....+-........+.-.| .-.| |.|.+|+|.|.+..+|++|+.+|+...
T Consensus 325 ----a~a~~~P~k~~~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~ 383 (500)
T KOG3993|consen 325 ----AKAGSPPPKQAVETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAP 383 (500)
T ss_pred ----hhcCCCChhhhhhhhhhhhhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccc
Confidence 00000000000000000000011 1112 999999999999999999999998543
No 20
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.29 E-value=2.5e-07 Score=51.31 Aligned_cols=25 Identities=20% Similarity=0.212 Sum_probs=19.8
Q ss_pred HHHhHhhhcCCCCCcccccccCCCCCCCCc
Q 038358 193 ALGGHRASHKHVKGCFAITRSSDGCEIDHD 222 (312)
Q Consensus 193 ~L~~H~~~H~~~k~y~~~~~~C~~C~~~f~ 222 (312)
+|.+|+++|+|++|| +|+.|++.|.
T Consensus 1 ~l~~H~~~H~~~k~~-----~C~~C~k~F~ 25 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPY-----KCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHHSSSSSE-----EESSSSEEES
T ss_pred CHHHHhhhcCCCCCC-----CCCCCcCeeC
Confidence 589999999999994 6666666654
No 21
>PHA00732 hypothetical protein
Probab=98.19 E-value=8.8e-07 Score=63.07 Aligned_cols=46 Identities=13% Similarity=0.183 Sum_probs=39.0
Q ss_pred ccCCCCCCCCcCCCCCccccchhhHhHhhh-cCceecCccccccCChhhHhhhhhhcc
Q 038358 212 RSSDGCEIDHDHCSDGIVKENVDDERKMMM-VLGHKCSICLRVFSSGQALGGHKRCHW 268 (312)
Q Consensus 212 ~~C~~C~~~f~~~~~~~~~~~~~l~~H~~~-H~~~~C~~C~k~F~~~~~L~~H~~~H~ 268 (312)
|.|..|++.|.+.+ .|..|++. |.++.|+.||+.|. .|..|++++.
T Consensus 2 y~C~~Cgk~F~s~s--------~Lk~H~r~~H~~~~C~~CgKsF~---~l~~H~~~~~ 48 (79)
T PHA00732 2 FKCPICGFTTVTLF--------ALKQHARRNHTLTKCPVCNKSYR---RLNQHFYSQY 48 (79)
T ss_pred ccCCCCCCccCCHH--------HHHHHhhcccCCCccCCCCCEeC---ChhhhhcccC
Confidence 68999999999955 99999984 76799999999998 5788886653
No 22
>PHA00616 hypothetical protein
Probab=98.02 E-value=2.3e-06 Score=52.98 Aligned_cols=30 Identities=17% Similarity=0.348 Sum_probs=28.1
Q ss_pred ceecCCCccccCChHHHHhHhhhcCCCCCc
Q 038358 178 RFECNSCKKVFGSHQALGGHRASHKHVKGC 207 (312)
Q Consensus 178 ~~~C~~C~~~F~~~~~L~~H~~~H~~~k~y 207 (312)
||+|..||+.|..+.+|..|++.|+|++++
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~ 30 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKL 30 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcc
Confidence 689999999999999999999999999984
No 23
>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=98.00 E-value=2.8e-06 Score=45.60 Aligned_cols=23 Identities=48% Similarity=0.738 Sum_probs=21.3
Q ss_pred eecCccccccCChhhHhhhhhhc
Q 038358 245 HKCSICLRVFSSGQALGGHKRCH 267 (312)
Q Consensus 245 ~~C~~C~k~F~~~~~L~~H~~~H 267 (312)
|.|++|++.|.+...|..|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 78999999999999999999875
No 24
>PHA00732 hypothetical protein
Probab=97.96 E-value=5.2e-06 Score=59.10 Aligned_cols=42 Identities=14% Similarity=0.184 Sum_probs=33.7
Q ss_pred CccccCchhHHhHHhh-hcCCCCcceecCCCccccCChHHHHhHhhhcCCC
Q 038358 155 TGSFQQGIQVQDTNEV-NLGGVSCRFECNSCKKVFGSHQALGGHRASHKHV 204 (312)
Q Consensus 155 ~k~F~~~~~L~~H~~~-H~~~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~ 204 (312)
++.|.+..+|..|++. |. ++.|+.|++.|. .|..|++.+.+-
T Consensus 8 gk~F~s~s~Lk~H~r~~H~-----~~~C~~CgKsF~---~l~~H~~~~~~~ 50 (79)
T PHA00732 8 GFTTVTLFALKQHARRNHT-----LTKCPVCNKSYR---RLNQHFYSQYDI 50 (79)
T ss_pred CCccCCHHHHHHHhhcccC-----CCccCCCCCEeC---ChhhhhcccCCc
Confidence 7899999999999985 54 358999999998 578888766554
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=97.74 E-value=1.9e-05 Score=42.22 Aligned_cols=23 Identities=35% Similarity=0.713 Sum_probs=21.1
Q ss_pred eecCCCccccCChHHHHhHhhhc
Q 038358 179 FECNSCKKVFGSHQALGGHRASH 201 (312)
Q Consensus 179 ~~C~~C~~~F~~~~~L~~H~~~H 201 (312)
|+|++|++.|.+...|..|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 78999999999999999999875
No 26
>PHA00616 hypothetical protein
Probab=97.72 E-value=1.2e-05 Score=49.78 Aligned_cols=36 Identities=11% Similarity=0.075 Sum_probs=30.9
Q ss_pred ccccccccchhccCCCCCCCccccCchhHHhHHhhhcCCCCcceecCCCc
Q 038358 136 DHEVAACLLMLANGDVGVGTGSFQQGIQVQDTNEVNLGGVSCRFECNSCK 185 (312)
Q Consensus 136 ~~~C~~C~~~f~~~~~~~C~k~F~~~~~L~~H~~~H~~~~~k~~~C~~C~ 185 (312)
+|+|..| |+.|.+...|..|++.|+| ++++.|+.--
T Consensus 1 pYqC~~C------------G~~F~~~s~l~~H~r~~hg--~~~~~~~~~y 36 (44)
T PHA00616 1 MYQCLRC------------GGIFRKKKEVIEHLLSVHK--QNKLTLEYFY 36 (44)
T ss_pred CCccchh------------hHHHhhHHHHHHHHHHhcC--CCccceeEEE
Confidence 4677777 8899999999999999999 9999987533
No 27
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=97.66 E-value=6.6e-05 Score=49.50 Aligned_cols=44 Identities=16% Similarity=0.112 Sum_probs=32.7
Q ss_pred CccccCchhHHhHHhh-hcCCCCcceecCCCccccCChHHHHhHhhhcC
Q 038358 155 TGSFQQGIQVQDTNEV-NLGGVSCRFECNSCKKVFGSHQALGGHRASHK 202 (312)
Q Consensus 155 ~k~F~~~~~L~~H~~~-H~~~~~k~~~C~~C~~~F~~~~~L~~H~~~H~ 202 (312)
++. .....|..|... |.. ..+.+.|++|...+. .+|..|+..++
T Consensus 9 ~~~-~~~~~L~~H~~~~H~~-~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 9 GKG-FSESSLVEHCEDEHRS-ESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CCc-cCHHHHHHHHHhHCcC-CCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 664 446789999764 554 346899999998765 49999998754
No 28
>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=97.64 E-value=2.8e-05 Score=41.77 Aligned_cols=24 Identities=38% Similarity=0.697 Sum_probs=19.8
Q ss_pred eecCccccccCChhhHhhhhhhcc
Q 038358 245 HKCSICLRVFSSGQALGGHKRCHW 268 (312)
Q Consensus 245 ~~C~~C~k~F~~~~~L~~H~~~H~ 268 (312)
|.|++|++.|.+...|..|+++|+
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 689999999999999999998874
No 29
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=97.55 E-value=0.00011 Score=48.48 Aligned_cols=27 Identities=30% Similarity=0.413 Sum_probs=19.0
Q ss_pred ceecCCCccccCChHHHHhHhhh-cCCCC
Q 038358 178 RFECNSCKKVFGSHQALGGHRAS-HKHVK 205 (312)
Q Consensus 178 ~~~C~~C~~~F~~~~~L~~H~~~-H~~~k 205 (312)
.|.|+.|++ ..+...|..|... |..+.
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~~~ 29 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRSES 29 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcCCC
Confidence 478888888 4556788888764 65543
No 30
>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=97.44 E-value=7.6e-05 Score=41.57 Aligned_cols=25 Identities=44% Similarity=0.683 Sum_probs=22.9
Q ss_pred eecCccccccCChhhHhhhhhhccC
Q 038358 245 HKCSICLRVFSSGQALGGHKRCHWE 269 (312)
Q Consensus 245 ~~C~~C~k~F~~~~~L~~H~~~H~~ 269 (312)
|.|..|++.|.+...|..|++.|..
T Consensus 2 ~~C~~C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 2 FECDECGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp EEETTTTEEESSHHHHHHHHCTTTT
T ss_pred CCCCccCCccCChhHHHHHhHHhcC
Confidence 7899999999999999999998864
No 31
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.33 E-value=0.00016 Score=38.67 Aligned_cols=24 Identities=38% Similarity=0.735 Sum_probs=19.7
Q ss_pred eecCCCccccCChHHHHhHhhhcC
Q 038358 179 FECNSCKKVFGSHQALGGHRASHK 202 (312)
Q Consensus 179 ~~C~~C~~~F~~~~~L~~H~~~H~ 202 (312)
|.|++|++.|.+...|..|++.|+
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 789999999999999999998763
No 32
>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=97.32 E-value=0.00017 Score=40.17 Aligned_cols=26 Identities=46% Similarity=0.807 Sum_probs=23.7
Q ss_pred ceecCCCccccCChHHHHhHhhhcCC
Q 038358 178 RFECNSCKKVFGSHQALGGHRASHKH 203 (312)
Q Consensus 178 ~~~C~~C~~~F~~~~~L~~H~~~H~~ 203 (312)
+|+|..|++.|.+...|..|++.|.+
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhcC
Confidence 68999999999999999999988753
No 33
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.17 E-value=0.0002 Score=53.22 Aligned_cols=71 Identities=20% Similarity=0.231 Sum_probs=21.2
Q ss_pred ecCCCccccCChHHHHhHhhhcCCCCCcccccccCCCCCCCCcCCCCCccccchhhHhHhhhc--CceecCccccccCCh
Q 038358 180 ECNSCKKVFGSHQALGGHRASHKHVKGCFAITRSSDGCEIDHDHCSDGIVKENVDDERKMMMV--LGHKCSICLRVFSSG 257 (312)
Q Consensus 180 ~C~~C~~~F~~~~~L~~H~~~H~~~k~y~~~~~~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H--~~~~C~~C~k~F~~~ 257 (312)
+|..|+..|.....|..|+...++... . ....+.. ...+..+++.- ..+.|..|++.|.+.
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~------~---~~~~l~~--------~~~~~~~~~~~~~~~~~C~~C~~~f~s~ 63 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDI------P---DQKYLVD--------PNRLLNYLRKKVKESFRCPYCNKTFRSR 63 (100)
T ss_dssp -----------------------------------------------------------------SSEEBSSSS-EESSH
T ss_pred Ccccccccccccccccccccccccccc------c---ccccccc--------ccccccccccccCCCCCCCccCCCCcCH
Confidence 588999999999999999875444221 0 0000011 01222232221 129999999999999
Q ss_pred hhHhhhhhhc
Q 038358 258 QALGGHKRCH 267 (312)
Q Consensus 258 ~~L~~H~~~H 267 (312)
..|..|++.+
T Consensus 64 ~~l~~Hm~~~ 73 (100)
T PF12756_consen 64 EALQEHMRSK 73 (100)
T ss_dssp HHHHHHHHHT
T ss_pred HHHHHHHcCc
Confidence 9999999864
No 34
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.12 E-value=0.00037 Score=51.74 Aligned_cols=73 Identities=23% Similarity=0.355 Sum_probs=21.0
Q ss_pred cCccccccCCChHHHHHHHHhCCCCCCCCCCCCCCCCCCCCcchhhHHHhhhccCcccccccccchhccCCCCCCCcccc
Q 038358 80 PCSECGKKFWSWKALFGHMRCHPERQWRGINPPPNFRRPASPVKEVTSVENVMTVEDHEVAACLLMLANGDVGVGTGSFQ 159 (312)
Q Consensus 80 ~C~~C~k~f~~~~~L~~H~~~H~~~~~~C~~c~~~f~c~~c~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~~~C~k~F~ 159 (312)
.|..|+..|.+...|..||...++-. +.. ...+.
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~---------~~~-------------------------------------~~~l~ 34 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFD---------IPD-------------------------------------QKYLV 34 (100)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred Cccccccccccccccccccccccccc---------ccc-------------------------------------ccccc
Confidence 48999999999999999996544310 000 11222
Q ss_pred CchhHHhHHhhhcCCCCcceecCCCccccCChHHHHhHhhhc
Q 038358 160 QGIQVQDTNEVNLGGVSCRFECNSCKKVFGSHQALGGHRASH 201 (312)
Q Consensus 160 ~~~~L~~H~~~H~~~~~k~~~C~~C~~~F~~~~~L~~H~~~H 201 (312)
....+..+++... ...+.|..|++.|.+...|..|++.+
T Consensus 35 ~~~~~~~~~~~~~---~~~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 35 DPNRLLNYLRKKV---KESFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp -----------------SSEEBSSSS-EESSHHHHHHHHHHT
T ss_pred ccccccccccccc---CCCCCCCccCCCCcCHHHHHHHHcCc
Confidence 3333434443332 24689999999999999999999864
No 35
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.05 E-value=0.00033 Score=38.09 Aligned_cols=24 Identities=42% Similarity=0.672 Sum_probs=21.0
Q ss_pred eecCccccccCChhhHhhhhhhcc
Q 038358 245 HKCSICLRVFSSGQALGGHKRCHW 268 (312)
Q Consensus 245 ~~C~~C~k~F~~~~~L~~H~~~H~ 268 (312)
|.|+.|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 579999999999999999998775
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=96.94 E-value=0.00067 Score=43.03 Aligned_cols=41 Identities=15% Similarity=0.161 Sum_probs=26.4
Q ss_pred HhHHhhhcCCCCcceecCCCccccCChHHHHhHhhhcCCCCC
Q 038358 165 QDTNEVNLGGVSCRFECNSCKKVFGSHQALGGHRASHKHVKG 206 (312)
Q Consensus 165 ~~H~~~H~~~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~k~ 206 (312)
..+.+.|.. .+.|..|++|+..+.+..+|++|+.++++.||
T Consensus 12 ~~~~k~~~~-S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 12 TKKPKSKSQ-SEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp ----CCCCT-TS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred hhHHHHhhc-cCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 445544443 38999999999999999999999999888876
No 37
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=96.66 E-value=0.00065 Score=59.74 Aligned_cols=58 Identities=12% Similarity=0.132 Sum_probs=41.9
Q ss_pred hccCcccccccccchhccCCCCCCCccccCchhHHhHHh-hhcC----------------CCCcceecCCCccccCChHH
Q 038358 131 VMTVEDHEVAACLLMLANGDVGVGTGSFQQGIQVQDTNE-VNLG----------------GVSCRFECNSCKKVFGSHQA 193 (312)
Q Consensus 131 ~~~~~~~~C~~C~~~f~~~~~~~C~k~F~~~~~L~~H~~-~H~~----------------~~~k~~~C~~C~~~F~~~~~ 193 (312)
+..++||+|++=| |.|.++.+..|+.|+. -|.. ...|||+|+.|+|.+.....
T Consensus 344 v~d~KpykCpV~g----------C~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNG 413 (423)
T COG5189 344 VKDGKPYKCPVEG----------CNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNG 413 (423)
T ss_pred eecCceecCCCCC----------chhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCcc
Confidence 4456789998743 6999999999999985 3411 02477888888888777777
Q ss_pred HHhHh
Q 038358 194 LGGHR 198 (312)
Q Consensus 194 L~~H~ 198 (312)
|+-|+
T Consensus 414 LKYHr 418 (423)
T COG5189 414 LKYHR 418 (423)
T ss_pred ceecc
Confidence 77664
No 38
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.66 E-value=0.0015 Score=35.38 Aligned_cols=25 Identities=40% Similarity=0.752 Sum_probs=21.5
Q ss_pred eecCCCccccCChHHHHhHhhhcCC
Q 038358 179 FECNSCKKVFGSHQALGGHRASHKH 203 (312)
Q Consensus 179 ~~C~~C~~~F~~~~~L~~H~~~H~~ 203 (312)
|+|..|++.|.....|..|++.|..
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~~ 25 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHXX 25 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhcc
Confidence 5799999999999999999987753
No 39
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.50 E-value=0.0015 Score=35.49 Aligned_cols=23 Identities=39% Similarity=0.691 Sum_probs=20.9
Q ss_pred eecCccccccCChhhHhhhhhhc
Q 038358 245 HKCSICLRVFSSGQALGGHKRCH 267 (312)
Q Consensus 245 ~~C~~C~k~F~~~~~L~~H~~~H 267 (312)
|.|.+|++.|.+...|..|++.+
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 67999999999999999999865
No 40
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.38 E-value=0.0058 Score=59.87 Aligned_cols=80 Identities=11% Similarity=0.075 Sum_probs=43.7
Q ss_pred cccCchhHHhHHhhhc-C-CCCc-ceecCCCccccCChHHHHhHhhhcCCCCCcccccccCCCCCCCCcCCCCCccccch
Q 038358 157 SFQQGIQVQDTNEVNL-G-GVSC-RFECNSCKKVFGSHQALGGHRASHKHVKGCFAITRSSDGCEIDHDHCSDGIVKENV 233 (312)
Q Consensus 157 ~F~~~~~L~~H~~~H~-~-~~~k-~~~C~~C~~~F~~~~~L~~H~~~H~~~k~y~~~~~~C~~C~~~f~~~~~~~~~~~~ 233 (312)
....+..|..|++.-- + ...+ --.|..|...|.....|.+|++.++. .|..|++. ....=++....
T Consensus 158 k~Yt~~el~~h~~~gd~d~~s~rGhp~C~~C~~~fld~~el~rH~~~~h~---------~chfC~~~--~~~neyy~~~~ 226 (669)
T KOG2231|consen 158 KLYTRAELNLHLMFGDPDDESCRGHPLCKFCHERFLDDDELYRHLRFDHE---------FCHFCDYK--TGQNEYYNDYD 226 (669)
T ss_pred ehehHHHHHHHHhcCCCccccccCCccchhhhhhhccHHHHHHhhcccee---------heeecCcc--cccchhcccch
Confidence 4445667777765321 1 0011 13688888888888888888876653 55555421 00001111233
Q ss_pred hhHhHhhhcCceecC
Q 038358 234 DDERKMMMVLGHKCS 248 (312)
Q Consensus 234 ~l~~H~~~H~~~~C~ 248 (312)
.|..|.|.++ |.|.
T Consensus 227 dLe~HfR~~H-flCE 240 (669)
T KOG2231|consen 227 DLEEHFRKGH-FLCE 240 (669)
T ss_pred HHHHHhhhcC-cccc
Confidence 7777777555 4554
No 41
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.24 E-value=0.0023 Score=34.37 Aligned_cols=24 Identities=29% Similarity=0.378 Sum_probs=18.5
Q ss_pred eecCccccccCChhhHhhhhhhccC
Q 038358 245 HKCSICLRVFSSGQALGGHKRCHWE 269 (312)
Q Consensus 245 ~~C~~C~k~F~~~~~L~~H~~~H~~ 269 (312)
|+|+.|+.... ...|.+|++.|++
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHHS
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhCc
Confidence 78999998887 8899999988753
No 42
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=96.21 E-value=0.0021 Score=56.65 Aligned_cols=24 Identities=21% Similarity=0.497 Sum_probs=22.1
Q ss_pred CcceecCC--CccccCChHHHHhHhh
Q 038358 176 SCRFECNS--CKKVFGSHQALGGHRA 199 (312)
Q Consensus 176 ~k~~~C~~--C~~~F~~~~~L~~H~~ 199 (312)
+|||+|++ |.|++.....|+-|+.
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~l 372 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHML 372 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhh
Confidence 69999987 9999999999999976
No 43
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.20 E-value=0.01 Score=53.03 Aligned_cols=138 Identities=18% Similarity=0.178 Sum_probs=85.6
Q ss_pred cccCcc--ccccCCChHHHHHHHHhCCCCCCCCCCCC---CCCCCCCCcchhhHHHhhhccCcccccccccchhccCCCC
Q 038358 78 TRPCSE--CGKKFWSWKALFGHMRCHPERQWRGINPP---PNFRRPASPVKEVTSVENVMTVEDHEVAACLLMLANGDVG 152 (312)
Q Consensus 78 ~~~C~~--C~k~f~~~~~L~~H~~~H~~~~~~C~~c~---~~f~c~~c~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~~ 152 (312)
.|.|+. |..+......|+.|.+..+++ +.|..|- +.|.|
T Consensus 151 ~F~CP~skc~~~C~~~k~lk~H~K~~H~~-~~C~~C~~nKk~F~~----------------------------------- 194 (493)
T COG5236 151 SFKCPKSKCHRRCGSLKELKKHYKAQHGF-VLCSECIGNKKDFWN----------------------------------- 194 (493)
T ss_pred HhcCCchhhhhhhhhHHHHHHHHHhhcCc-EEhHhhhcCcccCcc-----------------------------------
Confidence 477876 777777788899998866654 3344431 12222
Q ss_pred CCCccccCchhHHhHHhhhcCCCCcc----eecCCCccccCChHHHHhHhhhcCCCCCcccccccCCCCCCCCcCCCCCc
Q 038358 153 VGTGSFQQGIQVQDTNEVNLGGVSCR----FECNSCKKVFGSHQALGGHRASHKHVKGCFAITRSSDGCEIDHDHCSDGI 228 (312)
Q Consensus 153 ~C~k~F~~~~~L~~H~~~H~~~~~k~----~~C~~C~~~F~~~~~L~~H~~~H~~~k~y~~~~~~C~~C~~~f~~~~~~~ 228 (312)
.-..-++..|+.|...-.. +.- -.|..|...|..-..|.+|.+..+. .|.+|+++- ..+.-+
T Consensus 195 --E~~lF~~~~Lr~H~~~G~~--e~GFKGHP~C~FC~~~FYdDDEL~~HcR~~HE---------~ChICD~v~-p~~~QY 260 (493)
T COG5236 195 --EIRLFRSSTLRDHKNGGLE--EEGFKGHPLCIFCKIYFYDDDELRRHCRLRHE---------ACHICDMVG-PIRYQY 260 (493)
T ss_pred --ceeeeecccccccccCCcc--ccCcCCCchhhhccceecChHHHHHHHHhhhh---------hhhhhhccC-ccchhh
Confidence 2223345567777654332 212 2588899999999999999886543 678887764 223234
Q ss_pred cccchhhHhHhhhcCceecCc--cc----cccCChhhHhhhhhh
Q 038358 229 VKENVDDERKMMMVLGHKCSI--CL----RVFSSGQALGGHKRC 266 (312)
Q Consensus 229 ~~~~~~l~~H~~~H~~~~C~~--C~----k~F~~~~~L~~H~~~ 266 (312)
|+.-..|.+|.+.-+ |.|.+ |- ..|.....|..|+-.
T Consensus 261 FK~Y~~Le~HF~~~h-y~ct~qtc~~~k~~vf~~~~el~~h~~~ 303 (493)
T COG5236 261 FKSYEDLEAHFRNAH-YCCTFQTCRVGKCYVFPYHTELLEHLTR 303 (493)
T ss_pred hhCHHHHHHHhhcCc-eEEEEEEEecCcEEEeccHHHHHHHHHH
Confidence 444557778875322 44432 22 468899999999744
No 44
>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=96.14 E-value=0.0031 Score=35.02 Aligned_cols=22 Identities=32% Similarity=0.584 Sum_probs=20.2
Q ss_pred eecCccccccCChhhHhhhhhh
Q 038358 245 HKCSICLRVFSSGQALGGHKRC 266 (312)
Q Consensus 245 ~~C~~C~k~F~~~~~L~~H~~~ 266 (312)
|.|..|++.|.+...|..|++.
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 6799999999999999999875
No 45
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.02 E-value=0.0048 Score=33.41 Aligned_cols=23 Identities=39% Similarity=0.732 Sum_probs=20.7
Q ss_pred eecCCCccccCChHHHHhHhhhc
Q 038358 179 FECNSCKKVFGSHQALGGHRASH 201 (312)
Q Consensus 179 ~~C~~C~~~F~~~~~L~~H~~~H 201 (312)
|.|.+|++.|.+...|..|++.+
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 68999999999999999998754
No 46
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=95.61 E-value=0.028 Score=42.49 Aligned_cols=85 Identities=16% Similarity=0.139 Sum_probs=54.1
Q ss_pred CcceecCCCccccCChHHHHhHhhhcCCCCCccc-------ccccCCCCCCCCcCCCCCccccchhhHhHhhhcCc-eec
Q 038358 176 SCRFECNSCKKVFGSHQALGGHRASHKHVKGCFA-------ITRSSDGCEIDHDHCSDGIVKENVDDERKMMMVLG-HKC 247 (312)
Q Consensus 176 ~k~~~C~~C~~~F~~~~~L~~H~~~H~~~k~y~~-------~~~~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H~~-~~C 247 (312)
+-|..|++||.+......|.+--.---..++|.. ....|-.|...|...... ..-...-.+ |.|
T Consensus 13 ~LP~~CpiCgLtLVss~HLARSyHHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~--------~~~~~~~~~~y~C 84 (112)
T TIGR00622 13 ELPVECPICGLTLILSTHLARSYHHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVS--------PFDELKDSHRYVC 84 (112)
T ss_pred CCCCcCCcCCCEEeccchHHHhhhccCCCcccccccccccCCCCcccCcCCCCCCcccc--------cccccccccceeC
Confidence 6789999999999888888764211011111110 112499999999863200 000000111 999
Q ss_pred CccccccCChhhHhhhhhhcc
Q 038358 248 SICLRVFSSGQALGGHKRCHW 268 (312)
Q Consensus 248 ~~C~k~F~~~~~L~~H~~~H~ 268 (312)
+.|...|-..-++-.|...|.
T Consensus 85 ~~C~~~FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 85 AVCKNVFCVDCDVFVHESLHC 105 (112)
T ss_pred CCCCCccccccchhhhhhccC
Confidence 999999999999888988885
No 47
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.57 E-value=0.021 Score=56.07 Aligned_cols=117 Identities=12% Similarity=0.061 Sum_probs=71.2
Q ss_pred cccccccchhccCCC----CCCCccccCchhHHhHHhhhcCCCCcceecCCC---------ccccCChHHHHhHhhhc-C
Q 038358 137 HEVAACLLMLANGDV----GVGTGSFQQGIQVQDTNEVNLGGVSCRFECNSC---------KKVFGSHQALGGHRASH-K 202 (312)
Q Consensus 137 ~~C~~C~~~f~~~~~----~~C~k~F~~~~~L~~H~~~H~~~~~k~~~C~~C---------~~~F~~~~~L~~H~~~H-~ 202 (312)
+.|.+|+.+|.-... .+| ..|.....|+.|+...+ +.+.|.+| .....+...|..|++.- .
T Consensus 100 ~~C~~C~~~~~~~~~~~~~~~c-~~~~s~~~Lk~H~~~~H----~~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~ 174 (669)
T KOG2231|consen 100 HSCHICDRRFRALYNKKECLHC-TEFKSVENLKNHMRDQH----KLHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDP 174 (669)
T ss_pred hhcCccccchhhhcccCCCccc-cchhHHHHHHHHHHHhh----hhhccccccccceeeeeeeehehHHHHHHHHhcCCC
Confidence 556666655521111 345 57778899999995432 24444443 22334567888887742 2
Q ss_pred CCCCcccccccCCCCCCCCcCCCCCccccchhhHhHhhhcCceecCcc------ccccCChhhHhhhhhhcc
Q 038358 203 HVKGCFAITRSSDGCEIDHDHCSDGIVKENVDDERKMMMVLGHKCSIC------LRVFSSGQALGGHKRCHW 268 (312)
Q Consensus 203 ~~k~y~~~~~~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H~~~~C~~C------~k~F~~~~~L~~H~~~H~ 268 (312)
+++- ....-.|..|...|.. ...|.+|++.++. .|..| +.-|.....|..|.|.+|
T Consensus 175 d~~s-~rGhp~C~~C~~~fld--------~~el~rH~~~~h~-~chfC~~~~~~neyy~~~~dLe~HfR~~H 236 (669)
T KOG2231|consen 175 DDES-CRGHPLCKFCHERFLD--------DDELYRHLRFDHE-FCHFCDYKTGQNEYYNDYDDLEEHFRKGH 236 (669)
T ss_pred cccc-ccCCccchhhhhhhcc--------HHHHHHhhcccee-heeecCcccccchhcccchHHHHHhhhcC
Confidence 2221 1111279999999998 4588899987664 45455 455677778888877654
No 48
>PRK04860 hypothetical protein; Provisional
Probab=95.54 E-value=0.007 Score=49.21 Aligned_cols=36 Identities=11% Similarity=0.285 Sum_probs=19.7
Q ss_pred ceecCCCccccCChHHHHhHhhhcCCCCCcccccccCCCCCCCCc
Q 038358 178 RFECNSCKKVFGSHQALGGHRASHKHVKGCFAITRSSDGCEIDHD 222 (312)
Q Consensus 178 ~~~C~~C~~~F~~~~~L~~H~~~H~~~k~y~~~~~~C~~C~~~f~ 222 (312)
+|.|. |+. ....+.+|.++|+++++| .|..|+..|.
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~Y-----rC~~C~~~l~ 154 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVY-----RCRRCGETLV 154 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccE-----ECCCCCceeE
Confidence 45555 554 444555555566555553 5555555543
No 49
>PRK04860 hypothetical protein; Provisional
Probab=95.36 E-value=0.01 Score=48.26 Aligned_cols=34 Identities=18% Similarity=0.366 Sum_probs=28.0
Q ss_pred CCccccCchhHHhHHhhhcCCCCcceecCCCccccCChH
Q 038358 154 GTGSFQQGIQVQDTNEVNLGGVSCRFECNSCKKVFGSHQ 192 (312)
Q Consensus 154 C~k~F~~~~~L~~H~~~H~~~~~k~~~C~~C~~~F~~~~ 192 (312)
|++ ....+++|.++|.+ +++|.|..|+..|....
T Consensus 124 C~~---~~~~~rrH~ri~~g--~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 124 CQE---HQLTVRRHNRVVRG--EAVYRCRRCGETLVFKG 157 (160)
T ss_pred CCC---eeCHHHHHHHHhcC--CccEECCCCCceeEEec
Confidence 555 67788999999998 89999999999887543
No 50
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=95.06 E-value=0.015 Score=31.15 Aligned_cols=23 Identities=22% Similarity=0.517 Sum_probs=18.2
Q ss_pred eecCCCccccCChHHHHhHhhhcC
Q 038358 179 FECNSCKKVFGSHQALGGHRASHK 202 (312)
Q Consensus 179 ~~C~~C~~~F~~~~~L~~H~~~H~ 202 (312)
|+|+.|+.... ...|..|++.|+
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 78999999888 889999998754
No 51
>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=94.94 E-value=0.013 Score=32.40 Aligned_cols=22 Identities=41% Similarity=0.783 Sum_probs=20.1
Q ss_pred eecCCCccccCChHHHHhHhhh
Q 038358 179 FECNSCKKVFGSHQALGGHRAS 200 (312)
Q Consensus 179 ~~C~~C~~~F~~~~~L~~H~~~ 200 (312)
|.|..|++.|.+...|..|++.
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 7899999999999999999875
No 52
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=94.86 E-value=0.014 Score=54.73 Aligned_cols=57 Identities=23% Similarity=0.379 Sum_probs=51.7
Q ss_pred ccccccccchhccCCCCCCCccccCchhHHhHHh--hhcCCCC--cceecC--CCccccCChHHHHhHhhhcCCCCC
Q 038358 136 DHEVAACLLMLANGDVGVGTGSFQQGIQVQDTNE--VNLGGVS--CRFECN--SCKKVFGSHQALGGHRASHKHVKG 206 (312)
Q Consensus 136 ~~~C~~C~~~f~~~~~~~C~k~F~~~~~L~~H~~--~H~~~~~--k~~~C~--~C~~~F~~~~~L~~H~~~H~~~k~ 206 (312)
++.|..| ...|.....|..|.+ .|.+ + +++.|+ .|++.|.....+..|...|.+..+
T Consensus 289 ~~~~~~~------------~~~~s~~~~l~~~~~~~~h~~--~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~ 351 (467)
T COG5048 289 PIKSKQC------------NISFSRSSPLTRHLRSVNHSG--ESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISP 351 (467)
T ss_pred CCCCccc------------cCCcccccccccccccccccc--ccCCceeeeccCCCccccccccccCCcccccCCCc
Confidence 5777777 789999999999999 8998 8 999999 899999999999999999988775
No 53
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=94.59 E-value=0.028 Score=35.82 Aligned_cols=29 Identities=10% Similarity=0.091 Sum_probs=21.3
Q ss_pred ccccccccchhccCCCCCCCccccCchhHHhHHhhhcCCCCcc
Q 038358 136 DHEVAACLLMLANGDVGVGTGSFQQGIQVQDTNEVNLGGVSCR 178 (312)
Q Consensus 136 ~~~C~~C~~~f~~~~~~~C~k~F~~~~~L~~H~~~H~~~~~k~ 178 (312)
|..|++| +..+.+..+|++|+.++++ .||
T Consensus 24 PatCP~C------------~a~~~~srnLrRHle~~H~--~k~ 52 (54)
T PF09237_consen 24 PATCPIC------------GAVIRQSRNLRRHLEIRHF--KKP 52 (54)
T ss_dssp -EE-TTT--------------EESSHHHHHHHHHHHTT--TS-
T ss_pred CCCCCcc------------hhhccchhhHHHHHHHHhc--ccC
Confidence 7888888 7799999999999988877 665
No 54
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=94.19 E-value=0.027 Score=30.60 Aligned_cols=21 Identities=33% Similarity=0.649 Sum_probs=15.2
Q ss_pred eecCccccccCChhhHhhhhhh
Q 038358 245 HKCSICLRVFSSGQALGGHKRC 266 (312)
Q Consensus 245 ~~C~~C~k~F~~~~~L~~H~~~ 266 (312)
..|+.||+.| ....|.+|+++
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 3688888888 66677777654
No 55
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=93.50 E-value=0.056 Score=56.44 Aligned_cols=50 Identities=14% Similarity=0.107 Sum_probs=33.2
Q ss_pred cccCCCCCCCCcCCCCCccccchhhHhHhhh--cCc--eecCccccccCChhhHhhhhhhcc
Q 038358 211 TRSSDGCEIDHDHCSDGIVKENVDDERKMMM--VLG--HKCSICLRVFSSGQALGGHKRCHW 268 (312)
Q Consensus 211 ~~~C~~C~~~f~~~~~~~~~~~~~l~~H~~~--H~~--~~C~~C~k~F~~~~~L~~H~~~H~ 268 (312)
++.|..|++--+-.. +|+.|+.. |.. .-|-.|+-.+.....|..|.+.+-
T Consensus 589 ~~~C~vc~yetniar--------nlrihmtss~~s~~p~~~Lq~~it~~l~~~~~~~~~lp~ 642 (1406)
T KOG1146|consen 589 SWRCEVCSYETNIAR--------NLRIHMTASPSSSPPSLVLQQNITSSLASLLGGQGRLPF 642 (1406)
T ss_pred Ccchhhhcchhhhhh--------ccccccccCCCCCChHHHhhhcchhhccccccCcCCCCC
Confidence 468888887665522 66666642 222 557777788888888877777773
No 56
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=93.12 E-value=0.073 Score=28.89 Aligned_cols=21 Identities=24% Similarity=0.528 Sum_probs=17.1
Q ss_pred eecCCCccccCChHHHHhHhhh
Q 038358 179 FECNSCKKVFGSHQALGGHRAS 200 (312)
Q Consensus 179 ~~C~~C~~~F~~~~~L~~H~~~ 200 (312)
..|+.||+.| ..+.|.+|+.+
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 4799999999 67788888764
No 57
>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=90.90 E-value=0.18 Score=29.47 Aligned_cols=23 Identities=22% Similarity=0.514 Sum_probs=20.8
Q ss_pred ceecCCCccccCChHHHHhHhhh
Q 038358 178 RFECNSCKKVFGSHQALGGHRAS 200 (312)
Q Consensus 178 ~~~C~~C~~~F~~~~~L~~H~~~ 200 (312)
+|.|++|++.|.....+..|+..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 68899999999999999999864
No 58
>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=90.89 E-value=0.16 Score=29.71 Aligned_cols=22 Identities=18% Similarity=0.489 Sum_probs=19.7
Q ss_pred eecCccccccCChhhHhhhhhh
Q 038358 245 HKCSICLRVFSSGQALGGHKRC 266 (312)
Q Consensus 245 ~~C~~C~k~F~~~~~L~~H~~~ 266 (312)
|.|++|++.|.....+..|++.
T Consensus 4 ~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 4 FYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred eEccccCCccCCHHHHHHHHCh
Confidence 7899999999999999999854
No 59
>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=88.95 E-value=0.29 Score=26.83 Aligned_cols=24 Identities=17% Similarity=0.393 Sum_probs=16.4
Q ss_pred cCCCCCCCCcCCCCCccccchhhHhHhhhcCceecCccccccC
Q 038358 213 SSDGCEIDHDHCSDGIVKENVDDERKMMMVLGHKCSICLRVFS 255 (312)
Q Consensus 213 ~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H~~~~C~~C~k~F~ 255 (312)
.|+.|++.-.... -.|+.||..|.
T Consensus 2 ~CP~C~~~V~~~~-------------------~~Cp~CG~~F~ 25 (26)
T PF10571_consen 2 TCPECGAEVPESA-------------------KFCPHCGYDFE 25 (26)
T ss_pred cCCCCcCCchhhc-------------------CcCCCCCCCCc
Confidence 4777777665533 56888888775
No 60
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=88.21 E-value=0.15 Score=43.49 Aligned_cols=25 Identities=40% Similarity=0.659 Sum_probs=17.5
Q ss_pred eecCccccccCChhhHhhh-hhhccC
Q 038358 245 HKCSICLRVFSSGQALGGH-KRCHWE 269 (312)
Q Consensus 245 ~~C~~C~k~F~~~~~L~~H-~~~H~~ 269 (312)
|+|.+|.|...+---|..| |.+|.+
T Consensus 35 fkchichkkl~sgpglsihcmqvhke 60 (341)
T KOG2893|consen 35 FKCHICHKKLFSGPGLSIHCMQVHKE 60 (341)
T ss_pred ceeeeehhhhccCCCceeehhhhhhh
Confidence 7777777777777677777 566654
No 61
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=87.29 E-value=0.33 Score=41.84 Aligned_cols=49 Identities=18% Similarity=0.308 Sum_probs=38.9
Q ss_pred cccCCCCCCCCcCCCCCccccchhhHhHhhhcCc--eecCccccccCChhhHhhhhhhccC
Q 038358 211 TRSSDGCEIDHDHCSDGIVKENVDDERKMMMVLG--HKCSICLRVFSSGQALGGHKRCHWE 269 (312)
Q Consensus 211 ~~~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H~~--~~C~~C~k~F~~~~~L~~H~~~H~~ 269 (312)
.|.|..||....- -.+.+|+..-++ |.|-.|++.|.. ..+..|...-++
T Consensus 3 ~FtCnvCgEsvKK---------p~vekH~srCrn~~fSCIDC~k~F~~-~sYknH~kCITE 53 (276)
T KOG2186|consen 3 FFTCNVCGESVKK---------PQVEKHMSRCRNAYFSCIDCGKTFER-VSYKNHTKCITE 53 (276)
T ss_pred EEehhhhhhhccc---------cchHHHHHhccCCeeEEeeccccccc-chhhhhhhhcch
Confidence 4789999987665 267789976666 999999999999 677889877654
No 62
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=87.21 E-value=0.18 Score=43.20 Aligned_cols=49 Identities=18% Similarity=0.248 Sum_probs=31.5
Q ss_pred CcceecCCCccccCChHHHHhHhhh---c-------CCCCCcccccccCCCCCCCCcCC
Q 038358 176 SCRFECNSCKKVFGSHQALGGHRAS---H-------KHVKGCFAITRSSDGCEIDHDHC 224 (312)
Q Consensus 176 ~k~~~C~~C~~~F~~~~~L~~H~~~---H-------~~~k~y~~~~~~C~~C~~~f~~~ 224 (312)
++.+.|++|+..|.++.-.....++ . .+..|+.=.+..|+.||.+|...
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 5788999999999988665555543 2 23333322345777777776653
No 63
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=86.85 E-value=0.17 Score=42.09 Aligned_cols=76 Identities=20% Similarity=0.328 Sum_probs=47.0
Q ss_pred cceecCC--CccccCChHHHHhHhhhcCCCCCcccccccCCCCCCCCcCCCCCccccchhhHhHhh----------hcCc
Q 038358 177 CRFECNS--CKKVFGSHQALGGHRASHKHVKGCFAITRSSDGCEIDHDHCSDGIVKENVDDERKMM----------MVLG 244 (312)
Q Consensus 177 k~~~C~~--C~~~F~~~~~L~~H~~~H~~~k~y~~~~~~C~~C~~~f~~~~~~~~~~~~~l~~H~~----------~H~~ 244 (312)
..|.|.+ |...|.....+..|-.+-++. .|..|.+.|.+.- -|..|+- +-.|
T Consensus 78 ~~~~cqvagc~~~~d~lD~~E~hY~~~h~~--------sCs~C~r~~Pt~h--------LLd~HI~E~HDs~Fqa~veRG 141 (253)
T KOG4173|consen 78 PAFACQVAGCCQVFDALDDYEHHYHTLHGN--------SCSFCKRAFPTGH--------LLDAHILEWHDSLFQALVERG 141 (253)
T ss_pred ccccccccchHHHHhhhhhHHHhhhhcccc--------hhHHHHHhCCchh--------hhhHHHHHHHHHHHHHHHHcC
Confidence 3466665 666777666666665543332 6777777777644 3444432 1222
Q ss_pred ---eec--CccccccCChhhHhhhh-hhcc
Q 038358 245 ---HKC--SICLRVFSSGQALGGHK-RCHW 268 (312)
Q Consensus 245 ---~~C--~~C~k~F~~~~~L~~H~-~~H~ 268 (312)
|+| +-|+..|.+...-..|+ ++|.
T Consensus 142 ~dMy~ClvEgCt~KFkT~r~RkdH~I~~Hk 171 (253)
T KOG4173|consen 142 QDMYQCLVEGCTEKFKTSRDRKDHMIRMHK 171 (253)
T ss_pred ccHHHHHHHhhhhhhhhhhhhhhHHHHhcc
Confidence 888 44888888888888886 5663
No 64
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=86.51 E-value=0.41 Score=34.23 Aligned_cols=30 Identities=23% Similarity=0.407 Sum_probs=22.2
Q ss_pred ccCCCCCCCCcCCCCCccccchhhHhHhhhcCc-eecCccccccCCh
Q 038358 212 RSSDGCEIDHDHCSDGIVKENVDDERKMMMVLG-HKCSICLRVFSSG 257 (312)
Q Consensus 212 ~~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H~~-~~C~~C~k~F~~~ 257 (312)
|.|+.|++. .+.|+-+| ..|..||..|.-.
T Consensus 36 ~~Cp~C~~~----------------~VkR~a~GIW~C~kCg~~fAGg 66 (89)
T COG1997 36 HVCPFCGRT----------------TVKRIATGIWKCRKCGAKFAGG 66 (89)
T ss_pred CcCCCCCCc----------------ceeeeccCeEEcCCCCCeeccc
Confidence 488888864 34566677 8999999988743
No 65
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=86.12 E-value=0.49 Score=44.20 Aligned_cols=55 Identities=16% Similarity=0.206 Sum_probs=39.3
Q ss_pred cceecCCCccccCChHHHHhHhh--hcCCC--CCcccccccCC--CCCCCCcCCCCCccccchhhHhHhhhcCc
Q 038358 177 CRFECNSCKKVFGSHQALGGHRA--SHKHV--KGCFAITRSSD--GCEIDHDHCSDGIVKENVDDERKMMMVLG 244 (312)
Q Consensus 177 k~~~C~~C~~~F~~~~~L~~H~~--~H~~~--k~y~~~~~~C~--~C~~~f~~~~~~~~~~~~~l~~H~~~H~~ 244 (312)
.++.|..|...|.....|..|.+ .|.++ ++ +.|. .|++.|.... .+.+|...|.+
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~-----~~~p~~~~~~~~~~~~--------~~~~~~~~~~~ 348 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKP-----FSCPYSLCGKLFSRND--------ALKRHILLHTS 348 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCc-----eeeeccCCCccccccc--------cccCCcccccC
Confidence 47889999999999999999998 78888 77 3555 4555555533 44555555555
No 66
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=85.05 E-value=0.29 Score=41.77 Aligned_cols=43 Identities=23% Similarity=0.375 Sum_probs=35.0
Q ss_pred CccccCchhHHhHHhhhcCCCCcceecCCCccccCChHHHHhH-hhhcCC
Q 038358 155 TGSFQQGIQVQDTNEVNLGGVSCRFECNSCKKVFGSHQALGGH-RASHKH 203 (312)
Q Consensus 155 ~k~F~~~~~L~~H~~~H~~~~~k~~~C~~C~~~F~~~~~L~~H-~~~H~~ 203 (312)
++.|....-|.+|++ .|-|+|.+|.+...+-..|..| +++|..
T Consensus 17 nrefddekiliqhqk------akhfkchichkkl~sgpglsihcmqvhke 60 (341)
T KOG2893|consen 17 NREFDDEKILIQHQK------AKHFKCHICHKKLFSGPGLSIHCMQVHKE 60 (341)
T ss_pred ccccchhhhhhhhhh------hccceeeeehhhhccCCCceeehhhhhhh
Confidence 888988888888874 5679999999998888888888 456643
No 67
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=83.49 E-value=0.65 Score=46.87 Aligned_cols=32 Identities=6% Similarity=-0.124 Sum_probs=20.6
Q ss_pred CCCCCCCCCCCCCCcchhhHHHhhhccCc-cccccccc
Q 038358 107 RGINPPPNFRRPASPVKEVTSVENVMTVE-DHEVAACL 143 (312)
Q Consensus 107 ~C~~c~~~f~c~~c~~~~~~~~~~~~~~~-~~~C~~C~ 143 (312)
.|..||..++|+.|... +..|... ...|.+||
T Consensus 437 ~C~~Cg~v~~Cp~Cd~~-----lt~H~~~~~L~CH~Cg 469 (730)
T COG1198 437 LCRDCGYIAECPNCDSP-----LTLHKATGQLRCHYCG 469 (730)
T ss_pred ecccCCCcccCCCCCcc-----eEEecCCCeeEeCCCC
Confidence 69999999999988421 2222222 56677774
No 68
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=83.35 E-value=1.7 Score=39.21 Aligned_cols=82 Identities=22% Similarity=0.301 Sum_probs=58.8
Q ss_pred ceecCCCccccCChHHHHhHhhh--cCCCCC----c---c----------------------------------------
Q 038358 178 RFECNSCKKVFGSHQALGGHRAS--HKHVKG----C---F---------------------------------------- 208 (312)
Q Consensus 178 ~~~C~~C~~~F~~~~~L~~H~~~--H~~~k~----y---~---------------------------------------- 208 (312)
.++|-.|.+.|..+..|+.||+. |....| | +
T Consensus 195 r~~CLyCekifrdkntLkeHMrkK~HrrinPknreYDkfyiINY~ev~ks~t~~~~e~dret~~d~~E~D~~wsDw~ed~ 274 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRKKRHRRINPKNREYDKFYIINYLEVGKSWTIVHSEDDRETNEDINETDDTWSDWNEDD 274 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHhccCcccCCCccccceEEEEeHhhcCCccchhhhhhhhhhhccccccccchhhhhcCC
Confidence 47999999999999999999984 643333 1 0
Q ss_pred --cccccCCCCCCCCcCCCCCccccchhhHhHhhhcCc------------------------------eecCccccccCC
Q 038358 209 --AITRSSDGCEIDHDHCSDGIVKENVDDERKMMMVLG------------------------------HKCSICLRVFSS 256 (312)
Q Consensus 209 --~~~~~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H~~------------------------------~~C~~C~k~F~~ 256 (312)
+.+.+|-.|.....+. ..|..||.+-+. -.|-.|+..|-.
T Consensus 275 a~a~~v~CLfC~~~~en~--------~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~ 346 (423)
T KOG2482|consen 275 AEALSVVCLFCTNFYENP--------VFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWK 346 (423)
T ss_pred CCccceEEEeeccchhhH--------HHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccC
Confidence 0113788888777663 367777754111 357889999999
Q ss_pred hhhHhhhhhhc
Q 038358 257 GQALGGHKRCH 267 (312)
Q Consensus 257 ~~~L~~H~~~H 267 (312)
...|..||.-+
T Consensus 347 e~~l~~hm~e~ 357 (423)
T KOG2482|consen 347 EPGLLIHMVED 357 (423)
T ss_pred cchhhhhcccc
Confidence 99999998653
No 69
>PHA00626 hypothetical protein
Probab=81.78 E-value=0.88 Score=29.62 Aligned_cols=13 Identities=23% Similarity=0.128 Sum_probs=11.3
Q ss_pred eecCccccccCCh
Q 038358 245 HKCSICLRVFSSG 257 (312)
Q Consensus 245 ~~C~~C~k~F~~~ 257 (312)
|+|+.||..|+..
T Consensus 24 YkCkdCGY~ft~~ 36 (59)
T PHA00626 24 YVCCDCGYNDSKD 36 (59)
T ss_pred eEcCCCCCeechh
Confidence 9999999988764
No 70
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=81.75 E-value=0.67 Score=48.85 Aligned_cols=75 Identities=20% Similarity=0.328 Sum_probs=45.0
Q ss_pred CcceecCCCccccCChHHHHhHhhhcCCCCCcccccccCCCCCCCCcCCCCCccccchhhHhHhhhcCc--eecCccccc
Q 038358 176 SCRFECNSCKKVFGSHQALGGHRASHKHVKGCFAITRSSDGCEIDHDHCSDGIVKENVDDERKMMMVLG--HKCSICLRV 253 (312)
Q Consensus 176 ~k~~~C~~C~~~F~~~~~L~~H~~~H~~~k~y~~~~~~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H~~--~~C~~C~k~ 253 (312)
..+|.|..|...|.....|..|.+.-. +.|.... ...-|.-.|-. |-|..|...
T Consensus 1282 ~~~~~~~~~~~~~~~~~~l~~~~~k~~----------------~~~~~~~--------~~~~~~l~~~d~~~~c~~c~~~ 1337 (1406)
T KOG1146|consen 1282 THRYLCRQCKMAFDGEAPLTAHQRKFC----------------FAGRGSG--------GSMPPPLRVPDCTYHCLACEVL 1337 (1406)
T ss_pred chhHHHHHHHhhhcchhHHHHHHHHHH----------------hccCccc--------cCCCCcccCccccccchHHHhh
Confidence 567788888888888888887762210 0011100 11122222222 339999999
Q ss_pred cCChhhHhhhhhhccCCCCCC
Q 038358 254 FSSGQALGGHKRCHWEKGDDP 274 (312)
Q Consensus 254 F~~~~~L~~H~~~H~~~~~~~ 274 (312)
|.....|..||++-.++...+
T Consensus 1338 ~~~~~alqihm~~~~~~~kt~ 1358 (1406)
T KOG1146|consen 1338 LSGREALQIHMRSSAHRRKTA 1358 (1406)
T ss_pred cchhHHHHHHHHHhhhcccCC
Confidence 999999999998644343333
No 71
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=81.60 E-value=0.75 Score=29.87 Aligned_cols=26 Identities=19% Similarity=0.281 Sum_probs=23.9
Q ss_pred CCcceecCCCccccCChHHHHhHhhh
Q 038358 175 VSCRFECNSCKKVFGSHQALGGHRAS 200 (312)
Q Consensus 175 ~~k~~~C~~C~~~F~~~~~L~~H~~~ 200 (312)
+|..++|+-||+.|....++.+|...
T Consensus 14 GE~~lrCPRC~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 14 GEEFLRCPRCGMVFRRRKDYIRHVNK 39 (65)
T ss_pred CceeeeCCchhHHHHHhHHHHHHhhH
Confidence 48899999999999999999999874
No 72
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=81.52 E-value=0.8 Score=41.27 Aligned_cols=91 Identities=22% Similarity=0.258 Sum_probs=58.2
Q ss_pred chhHHhHHhhhcCCCCcceecCCCc---ccc------CChHHHHhHhhhcCCCCCcccccccCCCCCCCCcCCCCCcccc
Q 038358 161 GIQVQDTNEVNLGGVSCRFECNSCK---KVF------GSHQALGGHRASHKHVKGCFAITRSSDGCEIDHDHCSDGIVKE 231 (312)
Q Consensus 161 ~~~L~~H~~~H~~~~~k~~~C~~C~---~~F------~~~~~L~~H~~~H~~~k~y~~~~~~C~~C~~~f~~~~~~~~~~ 231 (312)
-..|+.|.++.++ .+-|.+|- +.| .++..|..|...-..+..+ .-.=.|..|...|..-.
T Consensus 166 ~k~lk~H~K~~H~----~~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GF-KGHP~C~FC~~~FYdDD------ 234 (493)
T COG5236 166 LKELKKHYKAQHG----FVLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGF-KGHPLCIFCKIYFYDDD------ 234 (493)
T ss_pred HHHHHHHHHhhcC----cEEhHhhhcCcccCccceeeeecccccccccCCccccCc-CCCchhhhccceecChH------
Confidence 4578889887654 56677663 233 3456788887654333110 00127999999999844
Q ss_pred chhhHhHhhhcCceecCccccc-------cCChhhHhhhhh
Q 038358 232 NVDDERKMMMVLGHKCSICLRV-------FSSGQALGGHKR 265 (312)
Q Consensus 232 ~~~l~~H~~~H~~~~C~~C~k~-------F~~~~~L~~H~~ 265 (312)
.|.+|+|.-+. .|.+|++. |..-..|..|.+
T Consensus 235 --EL~~HcR~~HE-~ChICD~v~p~~~QYFK~Y~~Le~HF~ 272 (493)
T COG5236 235 --ELRRHCRLRHE-ACHICDMVGPIRYQYFKSYEDLEAHFR 272 (493)
T ss_pred --HHHHHHHhhhh-hhhhhhccCccchhhhhCHHHHHHHhh
Confidence 88899985444 34444443 778888998875
No 73
>PF14353 CpXC: CpXC protein
Probab=79.19 E-value=0.78 Score=35.76 Aligned_cols=22 Identities=23% Similarity=0.256 Sum_probs=16.9
Q ss_pred eecCccccccCChhhHhhhhhh
Q 038358 245 HKCSICLRVFSSGQALGGHKRC 266 (312)
Q Consensus 245 ~~C~~C~k~F~~~~~L~~H~~~ 266 (312)
|.|+.||..|.-...+.-|-..
T Consensus 39 ~~CP~Cg~~~~~~~p~lY~D~~ 60 (128)
T PF14353_consen 39 FTCPSCGHKFRLEYPLLYHDPE 60 (128)
T ss_pred EECCCCCCceecCCCEEEEcCC
Confidence 8899999999887777655443
No 74
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=77.99 E-value=1.6 Score=28.88 Aligned_cols=8 Identities=25% Similarity=0.592 Sum_probs=6.5
Q ss_pred eecCcccc
Q 038358 245 HKCSICLR 252 (312)
Q Consensus 245 ~~C~~C~k 252 (312)
|.|+.||.
T Consensus 51 Y~Cp~CGF 58 (61)
T COG2888 51 YRCPKCGF 58 (61)
T ss_pred eECCCcCc
Confidence 88888884
No 75
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=76.86 E-value=0.87 Score=29.59 Aligned_cols=24 Identities=25% Similarity=0.416 Sum_probs=21.0
Q ss_pred eecCccccccCChhhHhhhh-hhcc
Q 038358 245 HKCSICLRVFSSGQALGGHK-RCHW 268 (312)
Q Consensus 245 ~~C~~C~k~F~~~~~L~~H~-~~H~ 268 (312)
+.|+.||+.|.....+.+|. +.|.
T Consensus 18 lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 18 LRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred eeCCchhHHHHHhHHHHHHhhHHhh
Confidence 88999999999999999997 4554
No 76
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=76.81 E-value=2 Score=24.88 Aligned_cols=11 Identities=18% Similarity=0.890 Sum_probs=6.4
Q ss_pred eecCCCccccC
Q 038358 179 FECNSCKKVFG 189 (312)
Q Consensus 179 ~~C~~C~~~F~ 189 (312)
|+|.+||..+.
T Consensus 2 ~~C~~CGy~y~ 12 (33)
T cd00350 2 YVCPVCGYIYD 12 (33)
T ss_pred EECCCCCCEEC
Confidence 55666665554
No 77
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=76.74 E-value=1.6 Score=27.93 Aligned_cols=24 Identities=33% Similarity=0.480 Sum_probs=15.3
Q ss_pred eecCccccccCCh-----hhHhhhhh-hcc
Q 038358 245 HKCSICLRVFSSG-----QALGGHKR-CHW 268 (312)
Q Consensus 245 ~~C~~C~k~F~~~-----~~L~~H~~-~H~ 268 (312)
-.|..|++.+... +.|.+|++ .|.
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~~~h~ 48 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLRRKHP 48 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHHhHCc
Confidence 3566666666554 57777876 553
No 78
>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=75.67 E-value=2.3 Score=32.17 Aligned_cols=32 Identities=16% Similarity=0.297 Sum_probs=23.0
Q ss_pred ccCCCCCCCCcCCCCCccccchhhHhHhhhcCceecCccccccCChhh
Q 038358 212 RSSDGCEIDHDHCSDGIVKENVDDERKMMMVLGHKCSICLRVFSSGQA 259 (312)
Q Consensus 212 ~~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H~~~~C~~C~k~F~~~~~ 259 (312)
+.|+.||++|..-. + ....|+.||..|.-...
T Consensus 10 R~Cp~CG~kFYDLn-----------k-----~PivCP~CG~~~~~~~~ 41 (108)
T PF09538_consen 10 RTCPSCGAKFYDLN-----------K-----DPIVCPKCGTEFPPEPP 41 (108)
T ss_pred ccCCCCcchhccCC-----------C-----CCccCCCCCCccCcccc
Confidence 48999999988732 1 00569999999987733
No 79
>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=75.65 E-value=1.8 Score=32.65 Aligned_cols=30 Identities=20% Similarity=0.268 Sum_probs=25.7
Q ss_pred hhcCceec----CccccccCChhhHhhhhhhccC
Q 038358 240 MMVLGHKC----SICLRVFSSGQALGGHKRCHWE 269 (312)
Q Consensus 240 ~~H~~~~C----~~C~k~F~~~~~L~~H~~~H~~ 269 (312)
.++.||.| ..|+..+.+...+++|.+.++|
T Consensus 76 p~~~G~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 76 PVYDGYRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CCCCCeeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 45556999 9999999999999999988765
No 80
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=74.79 E-value=4.2 Score=36.58 Aligned_cols=74 Identities=19% Similarity=0.130 Sum_probs=46.7
Q ss_pred CcceecCCCccccCChHHHHhHhhhc-----CCCCCccc--ccccCCCCC-CCCcCCCCCccccchhhHhHhhhcCceec
Q 038358 176 SCRFECNSCKKVFGSHQALGGHRASH-----KHVKGCFA--ITRSSDGCE-IDHDHCSDGIVKENVDDERKMMMVLGHKC 247 (312)
Q Consensus 176 ~k~~~C~~C~~~F~~~~~L~~H~~~H-----~~~k~y~~--~~~~C~~C~-~~f~~~~~~~~~~~~~l~~H~~~H~~~~C 247 (312)
.-|-.|++|+-+.....+|.+-.+-- -.|.|... ..--|-.|+ ..-.... |.|
T Consensus 288 sLP~eCpiC~ltLVss~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~-------------------y~C 348 (378)
T KOG2807|consen 288 SLPIECPICSLTLVSSPHLARSYHHLFPLKPFVEIPETEYNGSRFCFACQGELLSSGR-------------------YRC 348 (378)
T ss_pred cCCccCCccceeEecchHHHHHHHhhcCCcchhhccccccCCCcceeeeccccCCCCc-------------------EEc
Confidence 67899999999999888887532211 12222100 011266672 2222211 999
Q ss_pred CccccccCChhhHhhhhhhcc
Q 038358 248 SICLRVFSSGQALGGHKRCHW 268 (312)
Q Consensus 248 ~~C~k~F~~~~~L~~H~~~H~ 268 (312)
..|...|-.--+.-.|...|.
T Consensus 349 ~~Ck~~FCldCDv~iHesLh~ 369 (378)
T KOG2807|consen 349 ESCKNVFCLDCDVFIHESLHN 369 (378)
T ss_pred hhccceeeccchHHHHhhhhc
Confidence 999999999888888877774
No 81
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=74.49 E-value=1.3 Score=35.70 Aligned_cols=16 Identities=19% Similarity=0.540 Sum_probs=11.9
Q ss_pred eecCccccccCChhhH
Q 038358 245 HKCSICLRVFSSGQAL 260 (312)
Q Consensus 245 ~~C~~C~k~F~~~~~L 260 (312)
|+|+.||++|.....+
T Consensus 29 ~~c~~c~~~f~~~e~~ 44 (154)
T PRK00464 29 RECLACGKRFTTFERV 44 (154)
T ss_pred eeccccCCcceEeEec
Confidence 7888888888775544
No 82
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=73.77 E-value=5.9 Score=30.06 Aligned_cols=39 Identities=13% Similarity=0.035 Sum_probs=23.2
Q ss_pred ecCCCccccCChHHHHhHhhhcCCCCCcccccccCCCCCCCCcCCC
Q 038358 180 ECNSCKKVFGSHQALGGHRASHKHVKGCFAITRSSDGCEIDHDHCS 225 (312)
Q Consensus 180 ~C~~C~~~F~~~~~L~~H~~~H~~~k~y~~~~~~C~~C~~~f~~~~ 225 (312)
.|--|...|........-. -..... |.|+.|...|-.-.
T Consensus 57 ~C~~C~~~f~~~~~~~~~~--~~~~~~-----y~C~~C~~~FC~dC 95 (112)
T TIGR00622 57 FCFGCQGPFPKPPVSPFDE--LKDSHR-----YVCAVCKNVFCVDC 95 (112)
T ss_pred cccCcCCCCCCcccccccc--cccccc-----eeCCCCCCcccccc
Confidence 4888999887653111000 011122 58999999888755
No 83
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=73.70 E-value=2.1 Score=37.04 Aligned_cols=38 Identities=21% Similarity=0.309 Sum_probs=29.9
Q ss_pred CchhHHhHHhhhcCCCCcceecCCCccccCChHHHHhHhhhc
Q 038358 160 QGIQVQDTNEVNLGGVSCRFECNSCKKVFGSHQALGGHRASH 201 (312)
Q Consensus 160 ~~~~L~~H~~~H~~~~~k~~~C~~C~~~F~~~~~L~~H~~~H 201 (312)
.+-.|.+|+-.-++ .-|.|-.|++.|.. ..+..|..--
T Consensus 14 KKp~vekH~srCrn---~~fSCIDC~k~F~~-~sYknH~kCI 51 (276)
T KOG2186|consen 14 KKPQVEKHMSRCRN---AYFSCIDCGKTFER-VSYKNHTKCI 51 (276)
T ss_pred cccchHHHHHhccC---CeeEEeeccccccc-chhhhhhhhc
Confidence 34578889877664 78999999999998 6788887643
No 84
>KOG4377 consensus Zn-finger protein [General function prediction only]
Probab=71.78 E-value=4.5 Score=37.50 Aligned_cols=25 Identities=28% Similarity=0.456 Sum_probs=21.8
Q ss_pred eecCc--cccccCChhhHhhhhhhccC
Q 038358 245 HKCSI--CLRVFSSGQALGGHKRCHWE 269 (312)
Q Consensus 245 ~~C~~--C~k~F~~~~~L~~H~~~H~~ 269 (312)
|.|.. |+..|...+.+..|.|.|..
T Consensus 402 fhc~r~Gc~~tl~s~sqm~shkrkheR 428 (480)
T KOG4377|consen 402 FHCDRLGCEATLYSVSQMASHKRKHER 428 (480)
T ss_pred eeecccCCceEEEehhhhhhhhhhhhh
Confidence 78865 99999999999999999863
No 85
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=71.64 E-value=2.9 Score=24.90 Aligned_cols=33 Identities=18% Similarity=0.289 Sum_probs=19.7
Q ss_pred ccCCCCCCCCcCCCCCccccchhhHhHhhhcCc-eecCccccccC
Q 038358 212 RSSDGCEIDHDHCSDGIVKENVDDERKMMMVLG-HKCSICLRVFS 255 (312)
Q Consensus 212 ~~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H~~-~~C~~C~k~F~ 255 (312)
..|+.|+..|.-.. .-+....+ .+|+.|+-.|.
T Consensus 3 i~CP~C~~~f~v~~-----------~~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 3 ITCPNCQTRFRVPD-----------DKLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred EECCCCCceEEcCH-----------HHcccCCcEEECCCCCcEee
Confidence 36788887777633 11222222 78888887774
No 86
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=71.62 E-value=3.7 Score=23.13 Aligned_cols=21 Identities=29% Similarity=0.349 Sum_probs=16.0
Q ss_pred ccCCCCCCCCcCC-CCCccccchhhHhHhhhcCceecCccc
Q 038358 212 RSSDGCEIDHDHC-SDGIVKENVDDERKMMMVLGHKCSICL 251 (312)
Q Consensus 212 ~~C~~C~~~f~~~-~~~~~~~~~~l~~H~~~H~~~~C~~C~ 251 (312)
|.|..|++..... . |.|..|+
T Consensus 1 ~~C~~C~~~~~~~~~-------------------Y~C~~c~ 22 (30)
T PF03107_consen 1 FWCDVCRRKIDGFYF-------------------YHCSECC 22 (30)
T ss_pred CCCCCCCCCcCCCEe-------------------EEeCCCC
Confidence 4788888877764 3 8898888
No 87
>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=71.48 E-value=6.8 Score=29.47 Aligned_cols=25 Identities=16% Similarity=0.444 Sum_probs=20.6
Q ss_pred eec----CCCccccCChHHHHhHhhhcCC
Q 038358 179 FEC----NSCKKVFGSHQALGGHRASHKH 203 (312)
Q Consensus 179 ~~C----~~C~~~F~~~~~L~~H~~~H~~ 203 (312)
|.| ..|+..+.+...+.+|.+.++|
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 788 8888888888888888877654
No 88
>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=70.34 E-value=2.4 Score=26.19 Aligned_cols=20 Identities=30% Similarity=0.531 Sum_probs=12.6
Q ss_pred eecCccccccCCh----hhHhhhh
Q 038358 245 HKCSICLRVFSSG----QALGGHK 264 (312)
Q Consensus 245 ~~C~~C~k~F~~~----~~L~~H~ 264 (312)
..|..|++.+... +.|.+|+
T Consensus 17 a~C~~C~~~~~~~~~~ts~l~~HL 40 (45)
T PF02892_consen 17 AKCKYCGKVIKYSSGGTSNLKRHL 40 (45)
T ss_dssp EEETTTTEE-----SSTHHHHHHH
T ss_pred EEeCCCCeEEeeCCCcHHHHHHhh
Confidence 6788888877764 6788887
No 89
>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=70.21 E-value=1.7 Score=26.21 Aligned_cols=13 Identities=23% Similarity=0.897 Sum_probs=8.0
Q ss_pred ceecCCCccccCC
Q 038358 178 RFECNSCKKVFGS 190 (312)
Q Consensus 178 ~~~C~~C~~~F~~ 190 (312)
.|+|..||..|..
T Consensus 5 ~y~C~~Cg~~fe~ 17 (41)
T smart00834 5 EYRCEDCGHTFEV 17 (41)
T ss_pred EEEcCCCCCEEEE
Confidence 4666666666653
No 90
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=69.37 E-value=3.5 Score=25.75 Aligned_cols=10 Identities=20% Similarity=0.540 Sum_probs=6.1
Q ss_pred eecCcccccc
Q 038358 245 HKCSICLRVF 254 (312)
Q Consensus 245 ~~C~~C~k~F 254 (312)
..|+.||-.+
T Consensus 22 ~~Cp~CG~~~ 31 (46)
T PRK00398 22 VRCPYCGYRI 31 (46)
T ss_pred eECCCCCCeE
Confidence 5677776543
No 91
>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=69.00 E-value=2.9 Score=24.86 Aligned_cols=11 Identities=27% Similarity=0.706 Sum_probs=8.2
Q ss_pred eecCccccccC
Q 038358 245 HKCSICLRVFS 255 (312)
Q Consensus 245 ~~C~~C~k~F~ 255 (312)
..|+.|+..|.
T Consensus 26 v~C~~C~~~~~ 36 (38)
T TIGR02098 26 VRCGKCGHVWY 36 (38)
T ss_pred EECCCCCCEEE
Confidence 67888887764
No 92
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=68.49 E-value=1.9 Score=36.90 Aligned_cols=14 Identities=7% Similarity=0.095 Sum_probs=12.1
Q ss_pred cccCCCCCCCCcCC
Q 038358 211 TRSSDGCEIDHDHC 224 (312)
Q Consensus 211 ~~~C~~C~~~f~~~ 224 (312)
...|++|++.|...
T Consensus 5 ~~~CPvC~~~F~~~ 18 (214)
T PF09986_consen 5 KITCPVCGKEFKTK 18 (214)
T ss_pred ceECCCCCCeeeee
Confidence 46999999999984
No 93
>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=67.18 E-value=1.8 Score=31.35 Aligned_cols=17 Identities=29% Similarity=0.663 Sum_probs=11.4
Q ss_pred hhcCc-eecCccccccCC
Q 038358 240 MMVLG-HKCSICLRVFSS 256 (312)
Q Consensus 240 ~~H~~-~~C~~C~k~F~~ 256 (312)
|.-.| +.|..|++.|.-
T Consensus 48 R~a~GIW~C~~C~~~~AG 65 (90)
T PF01780_consen 48 RVATGIWKCKKCGKKFAG 65 (90)
T ss_dssp EEETTEEEETTTTEEEE-
T ss_pred EeeeEEeecCCCCCEEeC
Confidence 34455 888888888763
No 94
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=66.52 E-value=2 Score=38.85 Aligned_cols=40 Identities=20% Similarity=0.309 Sum_probs=30.1
Q ss_pred CcceecCCCccccCChHHHHhHhhh-cCCCCCcccccccCCCCCC
Q 038358 176 SCRFECNSCKKVFGSHQALGGHRAS-HKHVKGCFAITRSSDGCEI 219 (312)
Q Consensus 176 ~k~~~C~~C~~~F~~~~~L~~H~~~-H~~~k~y~~~~~~C~~C~~ 219 (312)
+..|.|+.|++.-.+...|..|... |..-.+ ...|+.|+-
T Consensus 77 ~qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~----~~icp~c~~ 117 (381)
T KOG1280|consen 77 PQSFTCPYCGIMGFTERQFGTHVLSQHPEAST----SVICPLCAA 117 (381)
T ss_pred cccccCCcccccccchhHHHHHhhhcCcccCc----ceeeecccc
Confidence 5679999999999999999999864 554332 246777753
No 95
>PRK14873 primosome assembly protein PriA; Provisional
Probab=66.37 E-value=2.7 Score=42.26 Aligned_cols=15 Identities=7% Similarity=-0.201 Sum_probs=12.7
Q ss_pred CCCCCCCCCCCCCCc
Q 038358 107 RGINPPPNFRRPASP 121 (312)
Q Consensus 107 ~C~~c~~~f~c~~c~ 121 (312)
.|..|+...+|+.|.
T Consensus 385 ~C~~Cg~~~~C~~C~ 399 (665)
T PRK14873 385 ACARCRTPARCRHCT 399 (665)
T ss_pred EhhhCcCeeECCCCC
Confidence 799999988888884
No 96
>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=65.95 E-value=3.3 Score=40.32 Aligned_cols=32 Identities=9% Similarity=-0.139 Sum_probs=21.6
Q ss_pred CCCCCCCCCCCCCCcchhhHHHhhhccC-ccccccccc
Q 038358 107 RGINPPPNFRRPASPVKEVTSVENVMTV-EDHEVAACL 143 (312)
Q Consensus 107 ~C~~c~~~f~c~~c~~~~~~~~~~~~~~-~~~~C~~C~ 143 (312)
.|..||...+|+.|.. .+..|.. +...|.+||
T Consensus 215 ~C~~Cg~~~~C~~C~~-----~l~~h~~~~~l~Ch~Cg 247 (505)
T TIGR00595 215 LCRSCGYILCCPNCDV-----SLTYHKKEGKLRCHYCG 247 (505)
T ss_pred EhhhCcCccCCCCCCC-----ceEEecCCCeEEcCCCc
Confidence 7999999999999942 2222322 256788884
No 97
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=65.38 E-value=4.8 Score=23.81 Aligned_cols=33 Identities=21% Similarity=0.319 Sum_probs=18.7
Q ss_pred ccCCCCCCCCcCCCCCccccchhhHhHhhhcCc-eecCccccccC
Q 038358 212 RSSDGCEIDHDHCSDGIVKENVDDERKMMMVLG-HKCSICLRVFS 255 (312)
Q Consensus 212 ~~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H~~-~~C~~C~k~F~ 255 (312)
..|+.|+..|.-..+ -+.-... .+|+.|+..|.
T Consensus 3 i~Cp~C~~~y~i~d~-----------~ip~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDE-----------KIPPKGRKVRCSKCGHVFF 36 (36)
T ss_pred EECCCCCCEEeCCHH-----------HCCCCCcEEECCCCCCEeC
Confidence 467777777766331 0111111 78888887763
No 98
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=64.97 E-value=5.5 Score=26.40 Aligned_cols=8 Identities=25% Similarity=0.484 Sum_probs=6.9
Q ss_pred eecCcccc
Q 038358 245 HKCSICLR 252 (312)
Q Consensus 245 ~~C~~C~k 252 (312)
|.|+.||.
T Consensus 49 Y~CP~CGF 56 (59)
T PRK14890 49 YTCPKCGF 56 (59)
T ss_pred eECCCCCC
Confidence 99999984
No 99
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=64.96 E-value=5 Score=24.96 Aligned_cols=12 Identities=8% Similarity=0.238 Sum_probs=6.1
Q ss_pred ccCCCCCCCCcC
Q 038358 212 RSSDGCEIDHDH 223 (312)
Q Consensus 212 ~~C~~C~~~f~~ 223 (312)
|.|..||..|..
T Consensus 3 Y~C~~Cg~~~~~ 14 (44)
T smart00659 3 YICGECGRENEI 14 (44)
T ss_pred EECCCCCCEeec
Confidence 455555555444
No 100
>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=64.53 E-value=4.1 Score=23.77 Aligned_cols=10 Identities=20% Similarity=0.753 Sum_probs=4.9
Q ss_pred eecCCCcccc
Q 038358 179 FECNSCKKVF 188 (312)
Q Consensus 179 ~~C~~C~~~F 188 (312)
|+|.+||..+
T Consensus 3 ~~C~~CG~i~ 12 (34)
T cd00729 3 WVCPVCGYIH 12 (34)
T ss_pred EECCCCCCEe
Confidence 4555555443
No 101
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=64.27 E-value=4.4 Score=32.41 Aligned_cols=10 Identities=20% Similarity=0.570 Sum_probs=6.6
Q ss_pred eecCcccccc
Q 038358 245 HKCSICLRVF 254 (312)
Q Consensus 245 ~~C~~C~k~F 254 (312)
|.|+.||...
T Consensus 124 f~Cp~Cg~~l 133 (147)
T smart00531 124 FTCPRCGEEL 133 (147)
T ss_pred EECCCCCCEE
Confidence 7777777553
No 102
>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=63.51 E-value=2.8 Score=26.85 Aligned_cols=13 Identities=23% Similarity=0.851 Sum_probs=8.9
Q ss_pred ceecCCCccccCC
Q 038358 178 RFECNSCKKVFGS 190 (312)
Q Consensus 178 ~~~C~~C~~~F~~ 190 (312)
-|+|..||..|..
T Consensus 5 ey~C~~Cg~~fe~ 17 (52)
T TIGR02605 5 EYRCTACGHRFEV 17 (52)
T ss_pred EEEeCCCCCEeEE
Confidence 4677777777764
No 103
>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=63.08 E-value=4 Score=29.69 Aligned_cols=18 Identities=28% Similarity=0.538 Sum_probs=12.3
Q ss_pred hcCc-eecCccccccCChh
Q 038358 241 MVLG-HKCSICLRVFSSGQ 258 (312)
Q Consensus 241 ~H~~-~~C~~C~k~F~~~~ 258 (312)
.-.| ..|..|++.|.--.
T Consensus 49 ~a~GIW~C~~C~~~~AGGA 67 (91)
T TIGR00280 49 GSTGIWTCRKCGAKFAGGA 67 (91)
T ss_pred EeeEEEEcCCCCCEEeCCc
Confidence 3445 88888888886443
No 104
>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=62.40 E-value=9.1 Score=31.05 Aligned_cols=34 Identities=18% Similarity=0.157 Sum_probs=26.1
Q ss_pred CcceecCCCccccCChHHHHhHhhhcCCCCCcccccccCCCCCCCCcC
Q 038358 176 SCRFECNSCKKVFGSHQALGGHRASHKHVKGCFAITRSSDGCEIDHDH 223 (312)
Q Consensus 176 ~k~~~C~~C~~~F~~~~~L~~H~~~H~~~k~y~~~~~~C~~C~~~f~~ 223 (312)
..-|.|+.|+..|+...++.. . |.|+.||.....
T Consensus 107 ~~~Y~Cp~c~~r~tf~eA~~~---------~-----F~Cp~Cg~~L~~ 140 (158)
T TIGR00373 107 NMFFICPNMCVRFTFNEAMEL---------N-----FTCPRCGAMLDY 140 (158)
T ss_pred CCeEECCCCCcEeeHHHHHHc---------C-----CcCCCCCCEeee
Confidence 567999999999999888751 2 688888865443
No 105
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=61.74 E-value=8.5 Score=30.02 Aligned_cols=40 Identities=20% Similarity=0.267 Sum_probs=27.2
Q ss_pred CcceecCCCccccCCh------------------HHHHhHhhhcCCCCCcccccccCCCCCCCCcCCC
Q 038358 176 SCRFECNSCKKVFGSH------------------QALGGHRASHKHVKGCFAITRSSDGCEIDHDHCS 225 (312)
Q Consensus 176 ~k~~~C~~C~~~F~~~------------------~~L~~H~~~H~~~k~y~~~~~~C~~C~~~f~~~~ 225 (312)
.+-|+|.+|..+.... .+|.+|-.+| | +|+.|..+|.+.+
T Consensus 78 ~~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~y----p------vCPvCkTSFKss~ 135 (140)
T PF05290_consen 78 PKLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLY----P------VCPVCKTSFKSSS 135 (140)
T ss_pred CCceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccC----C------CCCcccccccccc
Confidence 5789999999887654 3344443333 3 7888888888744
No 106
>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=61.68 E-value=5.2 Score=21.77 Aligned_cols=19 Identities=21% Similarity=0.688 Sum_probs=13.8
Q ss_pred ecCccccccCChhhHhhhhh
Q 038358 246 KCSICLRVFSSGQALGGHKR 265 (312)
Q Consensus 246 ~C~~C~k~F~~~~~L~~H~~ 265 (312)
.|++|++.+ ....+..|+.
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 588888887 5567777765
No 107
>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=61.65 E-value=4 Score=32.00 Aligned_cols=24 Identities=25% Similarity=0.306 Sum_probs=15.7
Q ss_pred eecCccccccCChhhHhhhhhhccCCC
Q 038358 245 HKCSICLRVFSSGQALGGHKRCHWEKG 271 (312)
Q Consensus 245 ~~C~~C~k~F~~~~~L~~H~~~H~~~~ 271 (312)
..|-+|||.|... .+|++.|+|-.
T Consensus 73 i~clecGk~~k~L---krHL~~~~glt 96 (132)
T PF05443_consen 73 IICLECGKKFKTL---KRHLRTHHGLT 96 (132)
T ss_dssp EE-TBT--EESBH---HHHHHHTT-S-
T ss_pred eEEccCCcccchH---HHHHHHccCCC
Confidence 6799999998865 88999997644
No 108
>KOG4317 consensus Predicted Zn-finger protein [Function unknown]
Probab=61.47 E-value=1.6 Score=38.82 Aligned_cols=43 Identities=19% Similarity=0.276 Sum_probs=28.3
Q ss_pred cCCCCCCCCcCCCCCccccchhhHhHhhhcCceecCccccccCChhhHhhhhhhccCCCCCCcc
Q 038358 213 SSDGCEIDHDHCSDGIVKENVDDERKMMMVLGHKCSICLRVFSSGQALGGHKRCHWEKGDDPLL 276 (312)
Q Consensus 213 ~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H~~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~~~ 276 (312)
.|.+|+..|.. |.|+.|+..|.+..-++.|.-...++-.+..+
T Consensus 9 ~C~ic~vq~~~---------------------YtCPRCn~~YCsl~CYr~h~~~CsE~FyrdqV 51 (383)
T KOG4317|consen 9 ACGICGVQKRE---------------------YTCPRCNLLYCSLKCYRNHKHSCSEKFYRDQV 51 (383)
T ss_pred ecccccccccc---------------------ccCCCCCccceeeeeecCCCccchHHHHHHHH
Confidence 57777777776 77888877777777777775544444444433
No 109
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=60.75 E-value=4.4 Score=33.10 Aligned_cols=10 Identities=20% Similarity=0.441 Sum_probs=5.2
Q ss_pred CcceecCCCc
Q 038358 176 SCRFECNSCK 185 (312)
Q Consensus 176 ~k~~~C~~C~ 185 (312)
+-|-+|++||
T Consensus 147 e~P~~CPiCg 156 (166)
T COG1592 147 EAPEVCPICG 156 (166)
T ss_pred CCCCcCCCCC
Confidence 4455555554
No 110
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=60.46 E-value=1.9 Score=42.72 Aligned_cols=27 Identities=22% Similarity=0.443 Sum_probs=24.7
Q ss_pred eecCccccccCChhhHhhhhhhccCCC
Q 038358 245 HKCSICLRVFSSGQALGGHKRCHWEKG 271 (312)
Q Consensus 245 ~~C~~C~k~F~~~~~L~~H~~~H~~~~ 271 (312)
|.|.+|+|.|-....+..||++|.-..
T Consensus 793 FpCreC~kvF~KiKSrNAHMK~Hr~q~ 819 (907)
T KOG4167|consen 793 FPCRECGKVFFKIKSRNAHMKTHRQQE 819 (907)
T ss_pred eehHHHHHHHHHHhhhhHHHHHHHHHH
Confidence 999999999999999999999997544
No 111
>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=59.78 E-value=5.7 Score=25.49 Aligned_cols=8 Identities=25% Similarity=0.792 Sum_probs=5.0
Q ss_pred eecCcccc
Q 038358 245 HKCSICLR 252 (312)
Q Consensus 245 ~~C~~C~k 252 (312)
|.|++|+.
T Consensus 35 w~CP~C~a 42 (50)
T cd00730 35 WVCPVCGA 42 (50)
T ss_pred CCCCCCCC
Confidence 66666663
No 112
>KOG2272 consensus Focal adhesion protein PINCH-1, contains LIM domains [Signal transduction mechanisms; Cytoskeleton]
Probab=59.64 E-value=2.6 Score=36.41 Aligned_cols=112 Identities=11% Similarity=0.114 Sum_probs=56.8
Q ss_pred CCCCCCCCcccCccccccCCChHHHHHHHHh---------CC-C-CCCCCCCCCCCCCCCCCcchhhHHHhhhccCcc--
Q 038358 70 PDPGAPKITRPCSECGKKFWSWKALFGHMRC---------HP-E-RQWRGINPPPNFRRPASPVKEVTSVENVMTVED-- 136 (312)
Q Consensus 70 ~~~~~~~~~~~C~~C~k~f~~~~~L~~H~~~---------H~-~-~~~~C~~c~~~f~c~~c~~~~~~~~~~~~~~~~-- 136 (312)
........-|.|++|.+...+...++.--+. .. + -.|.|.+|. ........+..+++
T Consensus 91 mnnSwHp~CF~Cd~Cn~~Lad~gf~rnqgr~LC~~Cn~k~Ka~~~g~YvC~KCh----------~~iD~~~l~fr~d~yH 160 (332)
T KOG2272|consen 91 MNNSWHPACFRCDLCNKHLADQGFYRNQGRALCRECNQKEKAKGRGRYVCQKCH----------AHIDEQPLTFRGDPYH 160 (332)
T ss_pred hccccCcccchhHHHHHHHhhhhhHhhcchHHhhhhhhhhcccccceeehhhhh----------hhcccccccccCCCCC
Confidence 3334444568999999887776655432111 11 1 156666652 11222222333443
Q ss_pred ---cccccccchhccCCC-----------------CCCC---ccccCchhHHhHHhhhcCCCCcceecCCCccccCChHH
Q 038358 137 ---HEVAACLLMLANGDV-----------------GVGT---GSFQQGIQVQDTNEVNLGGVSCRFECNSCKKVFGSHQA 193 (312)
Q Consensus 137 ---~~C~~C~~~f~~~~~-----------------~~C~---k~F~~~~~L~~H~~~H~~~~~k~~~C~~C~~~F~~~~~ 193 (312)
|+|..|++.+.+... ++|| +....+. ..-|-.|.- ..-|.|..|.+-|.-...
T Consensus 161 ~yHFkCt~C~keL~sdaRevk~eLyClrChD~mgipiCgaC~rpIeerv--i~amgKhWH--veHFvCa~CekPFlGHrH 236 (332)
T KOG2272|consen 161 PYHFKCTTCGKELTSDAREVKGELYCLRCHDKMGIPICGACRRPIEERV--IFAMGKHWH--VEHFVCAKCEKPFLGHRH 236 (332)
T ss_pred ccceecccccccccchhhhhccceeccccccccCCcccccccCchHHHH--HHHhccccc--hhheeehhcCCcccchhh
Confidence 668888777666544 3333 2222111 111222222 347899999999876544
Q ss_pred HH
Q 038358 194 LG 195 (312)
Q Consensus 194 L~ 195 (312)
+.
T Consensus 237 YE 238 (332)
T KOG2272|consen 237 YE 238 (332)
T ss_pred hh
Confidence 43
No 113
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=58.63 E-value=5.9 Score=28.78 Aligned_cols=15 Identities=27% Similarity=0.838 Sum_probs=10.7
Q ss_pred Cc-eecCccccccCCh
Q 038358 243 LG-HKCSICLRVFSSG 257 (312)
Q Consensus 243 ~~-~~C~~C~k~F~~~ 257 (312)
.| ..|..|++.|.--
T Consensus 52 ~GIW~C~~C~~~~AGG 67 (90)
T PTZ00255 52 VGIWRCKGCKKTVAGG 67 (90)
T ss_pred eEEEEcCCCCCEEeCC
Confidence 34 7888888887643
No 114
>PF04438 zf-HIT: HIT zinc finger; InterPro: IPR007529 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 HIT-type zinc finger, which contains 7 conserved cysteines and one histidine that can potentially coordinate two zinc atoms. It has been named after the first protein that originally defined the domain: the yeast HIT1 protein (P46973 from SWISSPROT) []. The HIT-type zinc finger displays some sequence similarities to the MYND-type zinc finger. The function of this domain is unknown but it is mainly found in nuclear proteins involved in gene regulation and chromatin remodeling. This domain is also found in the thyroid receptor interacting protein 3 (TRIP-3) Q15649 from SWISSPROT, that specifically interacts with the ligand binding domain of the thyroid receptor. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2YQP_A 2YQQ_A 1X4S_A.
Probab=58.39 E-value=4.7 Score=22.82 Aligned_cols=13 Identities=23% Similarity=0.449 Sum_probs=7.7
Q ss_pred eecCccccccCCh
Q 038358 245 HKCSICLRVFSSG 257 (312)
Q Consensus 245 ~~C~~C~k~F~~~ 257 (312)
|.|+.|+..+-+.
T Consensus 14 Y~Cp~C~~~~CSl 26 (30)
T PF04438_consen 14 YRCPRCGARYCSL 26 (30)
T ss_dssp EE-TTT--EESSH
T ss_pred EECCCcCCceeCc
Confidence 9999999876553
No 115
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=58.37 E-value=10 Score=30.34 Aligned_cols=39 Identities=10% Similarity=0.241 Sum_probs=27.1
Q ss_pred CcceecCCCccccCChHHHHhHhhhcCCCCCcccccccCCCCCCCCcC
Q 038358 176 SCRFECNSCKKVFGSHQALGGHRASHKHVKGCFAITRSSDGCEIDHDH 223 (312)
Q Consensus 176 ~k~~~C~~C~~~F~~~~~L~~H~~~H~~~k~y~~~~~~C~~C~~~f~~ 223 (312)
..-|.|+.|+..|.....+..- . ..+. |.|+.||.....
T Consensus 97 ~~~Y~Cp~C~~~y~~~ea~~~~-d-~~~~-------f~Cp~Cg~~l~~ 135 (147)
T smart00531 97 NAYYKCPNCQSKYTFLEANQLL-D-MDGT-------FTCPRCGEELEE 135 (147)
T ss_pred CcEEECcCCCCEeeHHHHHHhc-C-CCCc-------EECCCCCCEEEE
Confidence 5679999999999976654431 0 1221 699999987544
No 116
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=58.19 E-value=5.2 Score=22.42 Aligned_cols=10 Identities=30% Similarity=0.497 Sum_probs=4.4
Q ss_pred eecCcccccc
Q 038358 245 HKCSICLRVF 254 (312)
Q Consensus 245 ~~C~~C~k~F 254 (312)
|.|.+|+..+
T Consensus 16 Y~C~~Cdf~l 25 (30)
T PF07649_consen 16 YRCSECDFDL 25 (30)
T ss_dssp EE-TTT----
T ss_pred EECccCCCcc
Confidence 8888887543
No 117
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=57.55 E-value=5.6 Score=28.90 Aligned_cols=17 Identities=29% Similarity=0.649 Sum_probs=12.1
Q ss_pred hcCc-eecCccccccCCh
Q 038358 241 MVLG-HKCSICLRVFSSG 257 (312)
Q Consensus 241 ~H~~-~~C~~C~k~F~~~ 257 (312)
.-.| ..|..|++.|.-.
T Consensus 50 ~a~GIW~C~~C~~~~AGG 67 (90)
T PRK03976 50 VGTGIWECRKCGAKFAGG 67 (90)
T ss_pred EEEEEEEcCCCCCEEeCC
Confidence 3445 8888888888653
No 118
>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=57.19 E-value=9.6 Score=29.50 Aligned_cols=34 Identities=15% Similarity=0.034 Sum_probs=22.8
Q ss_pred ccCCCCCCCCcCCCCCccccchhhHhHhhhcCceecCccccccCChhhHh
Q 038358 212 RSSDGCEIDHDHCSDGIVKENVDDERKMMMVLGHKCSICLRVFSSGQALG 261 (312)
Q Consensus 212 ~~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H~~~~C~~C~k~F~~~~~L~ 261 (312)
+.|+.||++|.... + ..-.|+.||..|.-...+.
T Consensus 10 r~Cp~cg~kFYDLn-----------k-----~p~vcP~cg~~~~~~~~~~ 43 (129)
T TIGR02300 10 RICPNTGSKFYDLN-----------R-----RPAVSPYTGEQFPPEEALK 43 (129)
T ss_pred ccCCCcCccccccC-----------C-----CCccCCCcCCccCcchhhc
Confidence 48888888887632 1 0067999999887664443
No 119
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=56.06 E-value=11 Score=31.19 Aligned_cols=34 Identities=21% Similarity=0.341 Sum_probs=25.0
Q ss_pred CcceecCCCccccCChHHHHhHhhhcCCCCCcccccccCCCCCCCCcC
Q 038358 176 SCRFECNSCKKVFGSHQALGGHRASHKHVKGCFAITRSSDGCEIDHDH 223 (312)
Q Consensus 176 ~k~~~C~~C~~~F~~~~~L~~H~~~H~~~k~y~~~~~~C~~C~~~f~~ 223 (312)
..-|.|+.|+..|+...++. .. |.|+.||.....
T Consensus 115 ~~~Y~Cp~C~~rytf~eA~~---------~~-----F~Cp~Cg~~L~~ 148 (178)
T PRK06266 115 NMFFFCPNCHIRFTFDEAME---------YG-----FRCPQCGEMLEE 148 (178)
T ss_pred CCEEECCCCCcEEeHHHHhh---------cC-----CcCCCCCCCCee
Confidence 46799999999999888763 12 688888765444
No 120
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=55.86 E-value=11 Score=32.76 Aligned_cols=29 Identities=17% Similarity=0.479 Sum_probs=17.4
Q ss_pred CchhHHhHHhhhcC---CCCcceecCCCcccc
Q 038358 160 QGIQVQDTNEVNLG---GVSCRFECNSCKKVF 188 (312)
Q Consensus 160 ~~~~L~~H~~~H~~---~~~k~~~C~~C~~~F 188 (312)
+..+|+.+.+.+.+ ...+.|.|..|...+
T Consensus 91 Te~Nlrm~d~a~~~~ip~~drqFaC~~Cd~~W 122 (278)
T PF15135_consen 91 TEENLRMFDDAQENLIPSVDRQFACSSCDHMW 122 (278)
T ss_pred hHHHHHHhhhhhhccccccceeeeccccchHH
Confidence 34566665554433 114789999997654
No 121
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=55.29 E-value=6.4 Score=33.04 Aligned_cols=48 Identities=17% Similarity=0.277 Sum_probs=35.3
Q ss_pred CccccCchhHHhHHh-hhcC-------CCCcceec--CCCccccCChHHHHhHh-hhcC
Q 038358 155 TGSFQQGIQVQDTNE-VNLG-------GVSCRFEC--NSCKKVFGSHQALGGHR-ASHK 202 (312)
Q Consensus 155 ~k~F~~~~~L~~H~~-~H~~-------~~~k~~~C--~~C~~~F~~~~~L~~H~-~~H~ 202 (312)
.+.|.+..-|..|+. .|.. -|.--|+| +.|+..|.+...-..|+ ++|.
T Consensus 113 ~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~KFkT~r~RkdH~I~~Hk 171 (253)
T KOG4173|consen 113 KRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEKFKTSRDRKDHMIRMHK 171 (253)
T ss_pred HHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhhhhhhhhhhhHHHHhcc
Confidence 778888888888874 4420 01567899 55999999999988896 4564
No 122
>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=55.27 E-value=4.8 Score=32.70 Aligned_cols=30 Identities=13% Similarity=0.187 Sum_probs=22.0
Q ss_pred ccCCCCCCCCcCCCCCccccchhhHhHhhhcCceecCccccccC
Q 038358 212 RSSDGCEIDHDHCSDGIVKENVDDERKMMMVLGHKCSICLRVFS 255 (312)
Q Consensus 212 ~~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H~~~~C~~C~k~F~ 255 (312)
|.|+.|+.+|+.-. ++. .+|.|+.||....
T Consensus 110 Y~Cp~c~~r~tf~e--------A~~------~~F~Cp~Cg~~L~ 139 (158)
T TIGR00373 110 FICPNMCVRFTFNE--------AME------LNFTCPRCGAMLD 139 (158)
T ss_pred EECCCCCcEeeHHH--------HHH------cCCcCCCCCCEee
Confidence 69999999888722 433 1399999997643
No 123
>PF09416 UPF1_Zn_bind: RNA helicase (UPF2 interacting domain); InterPro: IPR018999 UPF1 (or regulator of nonsense transcripts 1 homologue) is an essential RNA helicase that detects mRNAs containing premature stop codons and triggers their degradation. This domain contains 3 zinc binding motifs and forms interactions with another protein (UPF2) that is also involved nonsense-mediated mRNA decay (NMD) []. ; GO: 0003677 DNA binding, 0004386 helicase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay, 0005737 cytoplasm; PDB: 2IYK_B 2WJY_A 2WJV_A 2XZL_A.
Probab=54.60 E-value=17 Score=29.25 Aligned_cols=45 Identities=27% Similarity=0.386 Sum_probs=21.9
Q ss_pred CcceecCCCccccC------ChHHHHhHhhh--cC-----CCCCcccccccCCCCCCC
Q 038358 176 SCRFECNSCKKVFG------SHQALGGHRAS--HK-----HVKGCFAITRSSDGCEID 220 (312)
Q Consensus 176 ~k~~~C~~C~~~F~------~~~~L~~H~~~--H~-----~~k~y~~~~~~C~~C~~~ 220 (312)
.--.+|..|++-|- ..+.+..|+.. |. .+-|+....++|..||-+
T Consensus 12 ~~vv~C~~c~kWFCNg~~~~s~SHIv~HLv~srh~ev~LH~~s~lgdt~leCy~Cg~~ 69 (152)
T PF09416_consen 12 SCVVKCNTCNKWFCNGRGNTSGSHIVNHLVRSRHKEVSLHPDSPLGDTVLECYNCGSR 69 (152)
T ss_dssp CCEEEETTTTEEEES--TTSSS-HHHHHHHHHT---EEE-TTSTT-S-B---TTT---
T ss_pred ccEeEcCCCCcEeecCCCCCcccHHHHHHHHccCCceeeCCCCCCCCcEEEEEecCCC
Confidence 56778888988884 34566666432 32 234444445788888853
No 124
>PF15269 zf-C2H2_7: Zinc-finger
Probab=54.45 E-value=7 Score=24.23 Aligned_cols=23 Identities=22% Similarity=0.265 Sum_probs=18.7
Q ss_pred eecCccccccCChhhHhhhhhhc
Q 038358 245 HKCSICLRVFSSGQALGGHKRCH 267 (312)
Q Consensus 245 ~~C~~C~k~F~~~~~L~~H~~~H 267 (312)
|+|-+|..+..-++.|-.||+--
T Consensus 21 ykcfqcpftc~~kshl~nhmky~ 43 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMKYS 43 (54)
T ss_pred ceeecCCcccchHHHHHHHHHHH
Confidence 78888888888888888888753
No 125
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=54.06 E-value=4.8 Score=33.39 Aligned_cols=31 Identities=19% Similarity=0.401 Sum_probs=22.2
Q ss_pred ccCCCCCCCCcCCCCCccccchhhHhHhhhcCceecCccccccCC
Q 038358 212 RSSDGCEIDHDHCSDGIVKENVDDERKMMMVLGHKCSICLRVFSS 256 (312)
Q Consensus 212 ~~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H~~~~C~~C~k~F~~ 256 (312)
|.|+.|+.+|+.-. ++. .+|.|+.||-....
T Consensus 118 Y~Cp~C~~rytf~e--------A~~------~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 118 FFCPNCHIRFTFDE--------AME------YGFRCPQCGEMLEE 148 (178)
T ss_pred EECCCCCcEEeHHH--------Hhh------cCCcCCCCCCCCee
Confidence 79999999888622 322 13999999976543
No 126
>PRK04023 DNA polymerase II large subunit; Validated
Probab=52.64 E-value=13 Score=38.83 Aligned_cols=23 Identities=22% Similarity=0.489 Sum_probs=15.9
Q ss_pred ccCCCCCCCCcCCCCCccccchhhHhHhhhcCceecCccccccC
Q 038358 212 RSSDGCEIDHDHCSDGIVKENVDDERKMMMVLGHKCSICLRVFS 255 (312)
Q Consensus 212 ~~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H~~~~C~~C~k~F~ 255 (312)
+.|+.|+..... +.|+.||..-.
T Consensus 652 ~fCP~CG~~~~~---------------------y~CPKCG~El~ 674 (1121)
T PRK04023 652 YRCPRCGIEVEE---------------------DECEKCGREPT 674 (1121)
T ss_pred eeCccccCcCCC---------------------CcCCCCCCCCC
Confidence 378888776555 78888886543
No 127
>PF09332 Mcm10: Mcm10 replication factor; InterPro: IPR015411 Mcm10 is a eukaryotic DNA replication factor that regulates the stability and chromatin association of DNA polymerase alpha []. ; PDB: 2KWQ_A.
Probab=51.15 E-value=4.4 Score=37.16 Aligned_cols=44 Identities=20% Similarity=0.217 Sum_probs=25.2
Q ss_pred CcceecCCCccccCChHHHH---hHh-hhcCCCCCcccccccCCCCCCCCcC
Q 038358 176 SCRFECNSCKKVFGSHQALG---GHR-ASHKHVKGCFAITRSSDGCEIDHDH 223 (312)
Q Consensus 176 ~k~~~C~~C~~~F~~~~~L~---~H~-~~H~~~k~y~~~~~~C~~C~~~f~~ 223 (312)
-+.+.|..|.++.......- .|. ..|.+.|-| |+|..|+++...
T Consensus 250 ~kav~C~~C~yt~~~~~~~C~~~~H~l~~~~a~KRF----FkC~~C~~Rt~s 297 (344)
T PF09332_consen 250 CKAVTCKQCKYTAFKPSDRCKEEGHPLKWHDAVKRF----FKCKDCGNRTIS 297 (344)
T ss_dssp EEEEEETTT--EESS--HHHHHTT--EEEEEEE-EE----EE-T-TS-EEEE
T ss_pred EEEEEcCCCCCcccCcchhHHhcCCceEEeeeeeee----EECCCCCCeeee
Confidence 35689999998876665543 443 357788887 899999998766
No 128
>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=50.45 E-value=12 Score=20.06 Aligned_cols=8 Identities=25% Similarity=0.513 Sum_probs=5.8
Q ss_pred eecCcccc
Q 038358 245 HKCSICLR 252 (312)
Q Consensus 245 ~~C~~C~k 252 (312)
|.|+.||+
T Consensus 17 f~CPnCG~ 24 (24)
T PF07754_consen 17 FPCPNCGF 24 (24)
T ss_pred EeCCCCCC
Confidence 77777774
No 129
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=50.39 E-value=7.5 Score=30.31 Aligned_cols=22 Identities=23% Similarity=0.280 Sum_probs=14.8
Q ss_pred eecCccccccCChhhHhhhhhhccC
Q 038358 245 HKCSICLRVFSSGQALGGHKRCHWE 269 (312)
Q Consensus 245 ~~C~~C~k~F~~~~~L~~H~~~H~~ 269 (312)
..|-++||.|+ .|.+|+.+|.|
T Consensus 77 IicLEDGkkfK---SLKRHL~t~~g 98 (148)
T COG4957 77 IICLEDGKKFK---SLKRHLTTHYG 98 (148)
T ss_pred EEEeccCcchH---HHHHHHhcccC
Confidence 55777777775 35677777664
No 130
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=50.20 E-value=7.7 Score=26.37 Aligned_cols=28 Identities=29% Similarity=0.412 Sum_probs=12.5
Q ss_pred cCCCCCCCCcCCCCCccccchhhHhHhhhcCceecCccccccCCh
Q 038358 213 SSDGCEIDHDHCSDGIVKENVDDERKMMMVLGHKCSICLRVFSSG 257 (312)
Q Consensus 213 ~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H~~~~C~~C~k~F~~~ 257 (312)
.|..|++.|.- ..++ +.|..||..|-..
T Consensus 11 ~C~~C~~~F~~----------~~rr-------hhCr~CG~~vC~~ 38 (69)
T PF01363_consen 11 NCMICGKKFSL----------FRRR-------HHCRNCGRVVCSS 38 (69)
T ss_dssp B-TTT--B-BS----------SS-E-------EE-TTT--EEECC
T ss_pred cCcCcCCcCCC----------ceee-------EccCCCCCEECCc
Confidence 67888888854 1122 6788888877654
No 131
>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=49.96 E-value=9.7 Score=28.78 Aligned_cols=15 Identities=20% Similarity=0.456 Sum_probs=7.4
Q ss_pred cceecCCCccccCCh
Q 038358 177 CRFECNSCKKVFGSH 191 (312)
Q Consensus 177 k~~~C~~C~~~F~~~ 191 (312)
.|..|+.||..|...
T Consensus 25 ~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 25 DPIVCPKCGTEFPPE 39 (108)
T ss_pred CCccCCCCCCccCcc
Confidence 444555555555443
No 132
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=49.53 E-value=21 Score=31.98 Aligned_cols=85 Identities=15% Similarity=0.103 Sum_probs=49.2
Q ss_pred CcceecCCCccccCChHHHHhHhhhc-----CCCCCcc--cccccCCCCCCCCcCCCCCccccchhhHhHhhhcCc-eec
Q 038358 176 SCRFECNSCKKVFGSHQALGGHRASH-----KHVKGCF--AITRSSDGCEIDHDHCSDGIVKENVDDERKMMMVLG-HKC 247 (312)
Q Consensus 176 ~k~~~C~~C~~~F~~~~~L~~H~~~H-----~~~k~y~--~~~~~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H~~-~~C 247 (312)
.-|..|+.|........+|.+-..-- -.|+|.. ..+--|-.|.-.|.-.....+ -..+-.+ |.|
T Consensus 320 sLPi~CP~Csl~LilsthLarSyhhL~PLk~f~E~p~~~~~ks~~Cf~CQ~~fp~~~~~~~--------~~~~ss~rY~C 391 (421)
T COG5151 320 SLPISCPICSLQLILSTHLARSYHHLYPLKPFVEKPEGTNPKSTHCFVCQGPFPKPPVSPF--------DESTSSGRYQC 391 (421)
T ss_pred cCCccCcchhHHHHHHHHHHHHHHhhccCcccccccCCCCCCCccceeccCCCCCCCCCcc--------cccccccceec
Confidence 46888999988776665555422111 1222210 011237777777665321000 0112223 999
Q ss_pred CccccccCChhhHhhhhhhcc
Q 038358 248 SICLRVFSSGQALGGHKRCHW 268 (312)
Q Consensus 248 ~~C~k~F~~~~~L~~H~~~H~ 268 (312)
+.|...|..--+.-.|...|.
T Consensus 392 e~CK~~FC~dCdvfiHe~Lh~ 412 (421)
T COG5151 392 ELCKSTFCSDCDVFIHETLHF 412 (421)
T ss_pred hhhhhhhhhhhHHHHHHHHhh
Confidence 999999999988888877774
No 133
>PRK05580 primosome assembly protein PriA; Validated
Probab=49.40 E-value=8.6 Score=38.96 Aligned_cols=34 Identities=9% Similarity=-0.130 Sum_probs=21.2
Q ss_pred CCCCCCCCCCCCCCCcchhhHHHhhhccCccccccccc
Q 038358 106 WRGINPPPNFRRPASPVKEVTSVENVMTVEDHEVAACL 143 (312)
Q Consensus 106 ~~C~~c~~~f~c~~c~~~~~~~~~~~~~~~~~~C~~C~ 143 (312)
..|..|+...+|+.|.. .+.-|. ..+...|.+||
T Consensus 382 ~~C~~Cg~~~~C~~C~~-~l~~h~---~~~~l~Ch~Cg 415 (679)
T PRK05580 382 LLCRDCGWVAECPHCDA-SLTLHR---FQRRLRCHHCG 415 (679)
T ss_pred eEhhhCcCccCCCCCCC-ceeEEC---CCCeEECCCCc
Confidence 36999999999998853 111111 12356677774
No 134
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=49.22 E-value=44 Score=30.95 Aligned_cols=81 Identities=16% Similarity=0.085 Sum_probs=48.8
Q ss_pred CCCCCcccCccccccCCChHHHHHHHHhCCCCCCCCCCCCCCCCCCCCcchhhHHHhhhccCcccccccccchhccCCCC
Q 038358 73 GAPKITRPCSECGKKFWSWKALFGHMRCHPERQWRGINPPPNFRRPASPVKEVTSVENVMTVEDHEVAACLLMLANGDVG 152 (312)
Q Consensus 73 ~~~~~~~~C~~C~k~f~~~~~L~~H~~~H~~~~~~C~~c~~~f~c~~c~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~~ 152 (312)
.....|-.|-.|++.+.+...-..||..+++= | +|...|--.. ..+-.-.....+.-+.|-.|...
T Consensus 161 e~e~~Pt~CLfC~~~~k~~e~~~~HM~~~Hgf-f---IPdreYL~D~---~GLl~YLgeKV~~~~~CL~CN~~------- 226 (390)
T KOG2785|consen 161 EDELIPTDCLFCDKKSKSLEENLKHMFKEHGF-F---IPDREYLTDE---KGLLKYLGEKVGIGFICLFCNEL------- 226 (390)
T ss_pred hcccCCcceeecCCCcccHHHHHHHHhhccCC-c---CCchHhhhch---hHHHHHHHHHhccCceEEEeccc-------
Confidence 33445568999999999999999999887761 0 2222222111 11111222233445777777310
Q ss_pred CCCccccCchhHHhHHh
Q 038358 153 VGTGSFQQGIQVQDTNE 169 (312)
Q Consensus 153 ~C~k~F~~~~~L~~H~~ 169 (312)
++.|......+.||.
T Consensus 227 --~~~f~sleavr~HM~ 241 (390)
T KOG2785|consen 227 --GRPFSSLEAVRAHMR 241 (390)
T ss_pred --cCcccccHHHHHHHh
Confidence 377888888888885
No 135
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=48.90 E-value=8.8 Score=24.48 Aligned_cols=11 Identities=9% Similarity=0.268 Sum_probs=7.0
Q ss_pred ccCCCCCCCCc
Q 038358 212 RSSDGCEIDHD 222 (312)
Q Consensus 212 ~~C~~C~~~f~ 222 (312)
|.|..||+.|.
T Consensus 7 Y~C~~Cg~~~~ 17 (49)
T COG1996 7 YKCARCGREVE 17 (49)
T ss_pred EEhhhcCCeee
Confidence 56666666664
No 136
>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=48.75 E-value=5.8 Score=25.55 Aligned_cols=24 Identities=21% Similarity=0.289 Sum_probs=15.0
Q ss_pred eecCccccccCChhhHhhhhhhcc
Q 038358 245 HKCSICLRVFSSGQALGGHKRCHW 268 (312)
Q Consensus 245 ~~C~~C~k~F~~~~~L~~H~~~H~ 268 (312)
|.|+.|...|-..-++-.|...|.
T Consensus 22 y~C~~C~~~FC~dCD~fiHE~LH~ 45 (51)
T PF07975_consen 22 YRCPKCKNHFCIDCDVFIHETLHN 45 (51)
T ss_dssp E--TTTT--B-HHHHHTTTTTS-S
T ss_pred EECCCCCCccccCcChhhhccccC
Confidence 889999999988888888877775
No 137
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=48.41 E-value=3.7 Score=40.85 Aligned_cols=26 Identities=42% Similarity=0.767 Sum_probs=24.2
Q ss_pred CcccCccccccCCChHHHHHHHHhCC
Q 038358 77 ITRPCSECGKKFWSWKALFGHMRCHP 102 (312)
Q Consensus 77 ~~~~C~~C~k~f~~~~~L~~H~~~H~ 102 (312)
.-|.|..|+|.|.....+..||+.|.
T Consensus 791 giFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 791 GIFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred ceeehHHHHHHHHHHhhhhHHHHHHH
Confidence 35999999999999999999999997
No 138
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=48.38 E-value=13 Score=22.71 Aligned_cols=25 Identities=12% Similarity=0.024 Sum_probs=14.6
Q ss_pred cCCCCCCCCcCCCCCccccchhhHhHhhhcC
Q 038358 213 SSDGCEIDHDHCSDGIVKENVDDERKMMMVL 243 (312)
Q Consensus 213 ~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H~ 243 (312)
.|+.||..|.... ..+-..|.+.|.
T Consensus 15 ~C~~CgM~Y~~~~------~eD~~~H~~yH~ 39 (41)
T PF13878_consen 15 TCPTCGMLYSPGS------PEDEKLHKKYHD 39 (41)
T ss_pred CCCCCCCEECCCC------HHHHHHHHHHHh
Confidence 6777777766633 335555655543
No 139
>PF15269 zf-C2H2_7: Zinc-finger
Probab=48.16 E-value=22 Score=22.06 Aligned_cols=23 Identities=26% Similarity=0.440 Sum_probs=20.2
Q ss_pred cccCccccccCCChHHHHHHHHh
Q 038358 78 TRPCSECGKKFWSWKALFGHMRC 100 (312)
Q Consensus 78 ~~~C~~C~k~f~~~~~L~~H~~~ 100 (312)
.|+|-+|..+...++.|-.||+.
T Consensus 20 ~ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 20 KYKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred cceeecCCcccchHHHHHHHHHH
Confidence 48899999999999999999874
No 140
>PRK12496 hypothetical protein; Provisional
Probab=47.84 E-value=9.6 Score=31.13 Aligned_cols=12 Identities=17% Similarity=0.487 Sum_probs=9.9
Q ss_pred ccCCCCCCCCcC
Q 038358 212 RSSDGCEIDHDH 223 (312)
Q Consensus 212 ~~C~~C~~~f~~ 223 (312)
+.|..|++.|..
T Consensus 128 ~~C~gC~~~~~~ 139 (164)
T PRK12496 128 KVCKGCKKKYPE 139 (164)
T ss_pred EECCCCCccccC
Confidence 589999999864
No 141
>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=46.13 E-value=16 Score=28.74 Aligned_cols=23 Identities=48% Similarity=0.759 Sum_probs=15.6
Q ss_pred cccCccccccCCChHHHHHHHHhCCC
Q 038358 78 TRPCSECGKKFWSWKALFGHMRCHPE 103 (312)
Q Consensus 78 ~~~C~~C~k~f~~~~~L~~H~~~H~~ 103 (312)
...|-+||+.|.. |.+|++.|.|
T Consensus 72 ~i~clecGk~~k~---LkrHL~~~~g 94 (132)
T PF05443_consen 72 YIICLECGKKFKT---LKRHLRTHHG 94 (132)
T ss_dssp -EE-TBT--EESB---HHHHHHHTT-
T ss_pred eeEEccCCcccch---HHHHHHHccC
Confidence 3689999999985 5999999965
No 142
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=45.75 E-value=15 Score=19.36 Aligned_cols=10 Identities=10% Similarity=0.444 Sum_probs=6.2
Q ss_pred CCCCCCCCcC
Q 038358 214 SDGCEIDHDH 223 (312)
Q Consensus 214 C~~C~~~f~~ 223 (312)
|+.||..-..
T Consensus 2 Cp~CG~~~~~ 11 (23)
T PF13240_consen 2 CPNCGAEIED 11 (23)
T ss_pred CcccCCCCCC
Confidence 6667765554
No 143
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=45.72 E-value=15 Score=33.90 Aligned_cols=46 Identities=26% Similarity=0.396 Sum_probs=38.1
Q ss_pred ccCCCCCCCCcCCCCCccccchhhHhHhhhcCc--------------------------eecCccc---cccCChhhHhh
Q 038358 212 RSSDGCEIDHDHCSDGIVKENVDDERKMMMVLG--------------------------HKCSICL---RVFSSGQALGG 262 (312)
Q Consensus 212 ~~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H~~--------------------------~~C~~C~---k~F~~~~~L~~ 262 (312)
-.|-.|++.|.+. ..-..||..++| |.|-.|+ +.|.+....+.
T Consensus 167 t~CLfC~~~~k~~--------e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~ 238 (390)
T KOG2785|consen 167 TDCLFCDKKSKSL--------EENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRA 238 (390)
T ss_pred cceeecCCCcccH--------HHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHH
Confidence 4799999998873 366688877776 7888898 99999999999
Q ss_pred hhh
Q 038358 263 HKR 265 (312)
Q Consensus 263 H~~ 265 (312)
||.
T Consensus 239 HM~ 241 (390)
T KOG2785|consen 239 HMR 241 (390)
T ss_pred HHh
Confidence 985
No 144
>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=45.20 E-value=14 Score=21.30 Aligned_cols=7 Identities=29% Similarity=0.800 Sum_probs=3.4
Q ss_pred eecCccc
Q 038358 245 HKCSICL 251 (312)
Q Consensus 245 ~~C~~C~ 251 (312)
..|+.||
T Consensus 18 irC~~CG 24 (32)
T PF03604_consen 18 IRCPECG 24 (32)
T ss_dssp SSBSSSS
T ss_pred EECCcCC
Confidence 3455554
No 145
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=44.40 E-value=16 Score=28.45 Aligned_cols=14 Identities=14% Similarity=0.202 Sum_probs=11.7
Q ss_pred ccCCCCCCCCcCCC
Q 038358 212 RSSDGCEIDHDHCS 225 (312)
Q Consensus 212 ~~C~~C~~~f~~~~ 225 (312)
++|..||+.|...+
T Consensus 2 H~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 2 HQCTKCGRVFEDGS 15 (131)
T ss_pred cccCcCCCCcCCCc
Confidence 68999999999855
No 146
>PRK14873 primosome assembly protein PriA; Provisional
Probab=44.07 E-value=15 Score=37.15 Aligned_cols=9 Identities=22% Similarity=0.571 Sum_probs=6.7
Q ss_pred eecCccccc
Q 038358 245 HKCSICLRV 253 (312)
Q Consensus 245 ~~C~~C~k~ 253 (312)
..|+.||-.
T Consensus 423 ~~Cp~Cgs~ 431 (665)
T PRK14873 423 WRCPRCGSD 431 (665)
T ss_pred ccCCCCcCC
Confidence 678888754
No 147
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=44.06 E-value=11 Score=24.29 Aligned_cols=28 Identities=36% Similarity=0.648 Sum_probs=19.5
Q ss_pred cCCCCCCCCcCCCCCccccchhhHhHhhhcCceecCccccccCCh
Q 038358 213 SSDGCEIDHDHCSDGIVKENVDDERKMMMVLGHKCSICLRVFSSG 257 (312)
Q Consensus 213 ~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H~~~~C~~C~k~F~~~ 257 (312)
.|..|++.|.... .+ +.|..||+.|-..
T Consensus 4 ~C~~C~~~F~~~~----------rk-------~~Cr~Cg~~~C~~ 31 (57)
T cd00065 4 SCMGCGKPFTLTR----------RR-------HHCRNCGRIFCSK 31 (57)
T ss_pred cCcccCccccCCc----------cc-------cccCcCcCCcChH
Confidence 6788888887622 22 6788888887764
No 148
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=44.04 E-value=16 Score=37.13 Aligned_cols=8 Identities=13% Similarity=0.301 Sum_probs=6.2
Q ss_pred cCCCCCCC
Q 038358 213 SSDGCEID 220 (312)
Q Consensus 213 ~C~~C~~~ 220 (312)
.|..||..
T Consensus 464 ~CH~Cg~~ 471 (730)
T COG1198 464 RCHYCGYQ 471 (730)
T ss_pred EeCCCCCC
Confidence 78888776
No 149
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=43.96 E-value=11 Score=26.12 Aligned_cols=16 Identities=25% Similarity=0.677 Sum_probs=13.3
Q ss_pred eecC--ccccccCChhhH
Q 038358 245 HKCS--ICLRVFSSGQAL 260 (312)
Q Consensus 245 ~~C~--~C~k~F~~~~~L 260 (312)
+.|. .||.+|.....+
T Consensus 28 ~qC~N~eCg~tF~t~es~ 45 (72)
T PRK09678 28 HQCQNVNCSATFITYESV 45 (72)
T ss_pred eecCCCCCCCEEEEEEEE
Confidence 8898 899999887665
No 150
>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=43.92 E-value=5.2 Score=23.40 Aligned_cols=11 Identities=18% Similarity=0.283 Sum_probs=5.5
Q ss_pred cCCCCCCCCcC
Q 038358 213 SSDGCEIDHDH 223 (312)
Q Consensus 213 ~C~~C~~~f~~ 223 (312)
.|..|++.|..
T Consensus 5 ~C~eC~~~f~d 15 (34)
T PF01286_consen 5 KCDECGKPFMD 15 (34)
T ss_dssp E-TTT--EES-
T ss_pred hHhHhCCHHHH
Confidence 68888888777
No 151
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=43.43 E-value=17 Score=23.74 Aligned_cols=29 Identities=14% Similarity=0.202 Sum_probs=18.7
Q ss_pred cCCCCCCCCcCCCCCccccchhhHhHhhhcCceecCccccccCChh
Q 038358 213 SSDGCEIDHDHCSDGIVKENVDDERKMMMVLGHKCSICLRVFSSGQ 258 (312)
Q Consensus 213 ~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H~~~~C~~C~k~F~~~~ 258 (312)
+|..||+.|...... -.|+.|+..+.+.-
T Consensus 7 ~C~~Cg~~~~~~dDi-----------------VvCp~CgapyHR~C 35 (54)
T PF14446_consen 7 KCPVCGKKFKDGDDI-----------------VVCPECGAPYHRDC 35 (54)
T ss_pred cChhhCCcccCCCCE-----------------EECCCCCCcccHHH
Confidence 788888888653311 56888887655443
No 152
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=43.10 E-value=12 Score=29.55 Aligned_cols=15 Identities=13% Similarity=0.583 Sum_probs=10.5
Q ss_pred cceecCCCccccCCh
Q 038358 177 CRFECNSCKKVFGSH 191 (312)
Q Consensus 177 k~~~C~~C~~~F~~~ 191 (312)
..+.|..||..|...
T Consensus 69 ~~~~C~~CG~~~~~~ 83 (135)
T PRK03824 69 AVLKCRNCGNEWSLK 83 (135)
T ss_pred eEEECCCCCCEEecc
Confidence 457788888777654
No 153
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=42.61 E-value=17 Score=34.18 Aligned_cols=31 Identities=13% Similarity=0.229 Sum_probs=24.2
Q ss_pred cCCCCCCCCcCCCCCccccchhhHhHhhhcCceecCccccccCChhh
Q 038358 213 SSDGCEIDHDHCSDGIVKENVDDERKMMMVLGHKCSICLRVFSSGQA 259 (312)
Q Consensus 213 ~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H~~~~C~~C~k~F~~~~~ 259 (312)
.|+.||.+..+.+.. ||+|+.||..+.....
T Consensus 352 ~Cp~Cg~~m~S~G~~----------------g~rC~kCg~~~~~~~~ 382 (421)
T COG1571 352 VCPRCGGRMKSAGRN----------------GFRCKKCGTRARETLI 382 (421)
T ss_pred CCCccCCchhhcCCC----------------CcccccccccCCcccc
Confidence 899999998886510 2999999999877643
No 154
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=42.41 E-value=15 Score=34.47 Aligned_cols=32 Identities=13% Similarity=0.186 Sum_probs=18.2
Q ss_pred ccCCCCCCCCcCCCCCccccchhhHhHhhhcCc-eecCcccc
Q 038358 212 RSSDGCEIDHDHCSDGIVKENVDDERKMMMVLG-HKCSICLR 252 (312)
Q Consensus 212 ~~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H~~-~~C~~C~k 252 (312)
|.|+.|.+.|+.-. + .+-+-.-++ |.|..|+-
T Consensus 129 Y~Cp~C~kkyt~Le--------a-~~L~~~~~~~F~C~~C~g 161 (436)
T KOG2593|consen 129 YVCPNCQKKYTSLE--------A-LQLLDNETGEFHCENCGG 161 (436)
T ss_pred ccCCccccchhhhH--------H-HHhhcccCceEEEecCCC
Confidence 58888888777622 1 111222234 88888873
No 155
>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=42.22 E-value=12 Score=20.87 Aligned_cols=23 Identities=26% Similarity=0.612 Sum_probs=12.7
Q ss_pred eecCccccccCChhhHhhhhhhcc
Q 038358 245 HKCSICLRVFSSGQALGGHKRCHW 268 (312)
Q Consensus 245 ~~C~~C~k~F~~~~~L~~H~~~H~ 268 (312)
|.|-.|++.| .....+.|..--+
T Consensus 1 ~sCiDC~~~F-~~~~y~~Ht~CIt 23 (28)
T PF08790_consen 1 FSCIDCSKDF-DGDSYKSHTSCIT 23 (28)
T ss_dssp EEETTTTEEE-EGGGTTT-----S
T ss_pred CeeecCCCCc-CcCCcCCCCcccC
Confidence 5688888888 5556666765444
No 156
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=41.98 E-value=12 Score=30.02 Aligned_cols=20 Identities=15% Similarity=-0.037 Sum_probs=9.8
Q ss_pred hhcCCCCCcccccccCCCCCC
Q 038358 199 ASHKHVKGCFAITRSSDGCEI 219 (312)
Q Consensus 199 ~~H~~~k~y~~~~~~C~~C~~ 219 (312)
..|+|+.+ ..-.+.|..||.
T Consensus 101 ~Y~sGE~~-g~G~l~C~~Cg~ 120 (146)
T PF07295_consen 101 VYHSGEVV-GPGTLVCENCGH 120 (146)
T ss_pred CeecCcEe-cCceEecccCCC
Confidence 34555554 223346666664
No 157
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=41.40 E-value=41 Score=30.50 Aligned_cols=24 Identities=38% Similarity=0.664 Sum_probs=14.8
Q ss_pred ceecCCCccccCChHHHHhHhhhc
Q 038358 178 RFECNSCKKVFGSHQALGGHRASH 201 (312)
Q Consensus 178 ~~~C~~C~~~F~~~~~L~~H~~~H 201 (312)
.|+|..|...|-..-+.-.|...|
T Consensus 345 ~y~C~~Ck~~FCldCDv~iHesLh 368 (378)
T KOG2807|consen 345 RYRCESCKNVFCLDCDVFIHESLH 368 (378)
T ss_pred cEEchhccceeeccchHHHHhhhh
Confidence 466666666666666655665555
No 158
>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=40.87 E-value=22 Score=23.24 Aligned_cols=29 Identities=17% Similarity=0.296 Sum_probs=18.3
Q ss_pred ccCCCCCCCCcCCCCCccccchhhHhHhhhcCc--eecCccccccC
Q 038358 212 RSSDGCEIDHDHCSDGIVKENVDDERKMMMVLG--HKCSICLRVFS 255 (312)
Q Consensus 212 ~~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H~~--~~C~~C~k~F~ 255 (312)
|+|+.||..+.-... ..| ..|+.||..|-
T Consensus 3 ~~CP~CG~~iev~~~---------------~~GeiV~Cp~CGaele 33 (54)
T TIGR01206 3 FECPDCGAEIELENP---------------ELGELVICDECGAELE 33 (54)
T ss_pred cCCCCCCCEEecCCC---------------ccCCEEeCCCCCCEEE
Confidence 678888876654220 012 78999987654
No 159
>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=40.79 E-value=11 Score=32.31 Aligned_cols=24 Identities=21% Similarity=0.461 Sum_probs=18.7
Q ss_pred eecCccccccCChhhHhhhhhh-cc
Q 038358 245 HKCSICLRVFSSGQALGGHKRC-HW 268 (312)
Q Consensus 245 ~~C~~C~k~F~~~~~L~~H~~~-H~ 268 (312)
|.|+.|+|.|.-..-.++|+.. |.
T Consensus 78 ~~C~lc~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 78 WRCPLCGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp EEE-SSS-EESSHHHHHHHHHHH-H
T ss_pred ECCCCCCcccCChHHHHHHHhhcCH
Confidence 9999999999999999999865 54
No 160
>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=40.27 E-value=6.8 Score=35.18 Aligned_cols=28 Identities=11% Similarity=0.236 Sum_probs=14.5
Q ss_pred CcceecCCCccccCChHHHHhHhhhcCCCCCcccccccCCCCCCCCc
Q 038358 176 SCRFECNSCKKVFGSHQALGGHRASHKHVKGCFAITRSSDGCEIDHD 222 (312)
Q Consensus 176 ~k~~~C~~C~~~F~~~~~L~~H~~~H~~~k~y~~~~~~C~~C~~~f~ 222 (312)
.|-..|..|+-.+... + ..|+.||..-.
T Consensus 195 ~R~L~Cs~C~t~W~~~-------------R------~~Cp~Cg~~~~ 222 (290)
T PF04216_consen 195 KRYLHCSLCGTEWRFV-------------R------IKCPYCGNTDH 222 (290)
T ss_dssp EEEEEETTT--EEE---------------T------TS-TTT---SS
T ss_pred cEEEEcCCCCCeeeec-------------C------CCCcCCCCCCC
Confidence 6888899998776543 2 28999986533
No 161
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=40.18 E-value=25 Score=21.15 Aligned_cols=13 Identities=31% Similarity=0.720 Sum_probs=7.4
Q ss_pred eecCccccccCCh
Q 038358 245 HKCSICLRVFSSG 257 (312)
Q Consensus 245 ~~C~~C~k~F~~~ 257 (312)
|.|..|++.|-..
T Consensus 13 f~C~~C~~~FC~~ 25 (39)
T smart00154 13 FKCRHCGNLFCGE 25 (39)
T ss_pred eECCccCCccccc
Confidence 5566666655543
No 162
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=40.12 E-value=13 Score=22.55 Aligned_cols=11 Identities=18% Similarity=0.489 Sum_probs=9.0
Q ss_pred eecCccccccC
Q 038358 245 HKCSICLRVFS 255 (312)
Q Consensus 245 ~~C~~C~k~F~ 255 (312)
|.|..|+..|.
T Consensus 29 y~C~~C~~~w~ 39 (40)
T smart00440 29 YVCTKCGHRWR 39 (40)
T ss_pred EEeCCCCCEeC
Confidence 89999988764
No 163
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=39.95 E-value=19 Score=31.40 Aligned_cols=13 Identities=8% Similarity=-0.115 Sum_probs=9.9
Q ss_pred hccCccccccccc
Q 038358 131 VMTVEDHEVAACL 143 (312)
Q Consensus 131 ~~~~~~~~C~~C~ 143 (312)
.|.++.|+|..|+
T Consensus 137 ~hGGrif~CsfC~ 149 (314)
T PF06524_consen 137 DHGGRIFKCSFCD 149 (314)
T ss_pred cCCCeEEEeecCC
Confidence 3777788888884
No 164
>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=39.61 E-value=12 Score=32.06 Aligned_cols=30 Identities=20% Similarity=0.396 Sum_probs=23.1
Q ss_pred CcceecCCCccccCChHHHHhHhhhcCCCC
Q 038358 176 SCRFECNSCKKVFGSHQALGGHRASHKHVK 205 (312)
Q Consensus 176 ~k~~~C~~C~~~F~~~~~L~~H~~~H~~~k 205 (312)
+..|.|..|+|.|.-..-..+|+..-+.++
T Consensus 75 ~~K~~C~lc~KlFkg~eFV~KHI~nKH~e~ 104 (214)
T PF04959_consen 75 EDKWRCPLCGKLFKGPEFVRKHIFNKHPEK 104 (214)
T ss_dssp SEEEEE-SSS-EESSHHHHHHHHHHH-HHH
T ss_pred CCEECCCCCCcccCChHHHHHHHhhcCHHH
Confidence 667999999999999999999998655443
No 165
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=39.20 E-value=23 Score=19.05 Aligned_cols=9 Identities=11% Similarity=0.294 Sum_probs=6.4
Q ss_pred ccCCCCCCC
Q 038358 212 RSSDGCEID 220 (312)
Q Consensus 212 ~~C~~C~~~ 220 (312)
..|+.||+.
T Consensus 3 ~~Cp~Cg~~ 11 (26)
T PF13248_consen 3 MFCPNCGAE 11 (26)
T ss_pred CCCcccCCc
Confidence 368888874
No 166
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=39.15 E-value=15 Score=27.97 Aligned_cols=7 Identities=29% Similarity=1.089 Sum_probs=3.7
Q ss_pred eecCccc
Q 038358 245 HKCSICL 251 (312)
Q Consensus 245 ~~C~~C~ 251 (312)
+.||.||
T Consensus 88 ~~CP~Cg 94 (114)
T PRK03681 88 RRCPQCH 94 (114)
T ss_pred CcCcCcC
Confidence 3455555
No 167
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=38.11 E-value=12 Score=29.57 Aligned_cols=22 Identities=23% Similarity=0.386 Sum_probs=18.8
Q ss_pred eecCccccccCChhhHhhhhhh
Q 038358 245 HKCSICLRVFSSGQALGGHKRC 266 (312)
Q Consensus 245 ~~C~~C~k~F~~~~~L~~H~~~ 266 (312)
|.|.-||-.+.+..-|..|..+
T Consensus 130 ysC~~CG~kyCsv~C~~~HneT 151 (156)
T KOG3362|consen 130 YSCVNCGTKYCSVRCLKTHNET 151 (156)
T ss_pred hHHHhcCCceeechhhhhcccc
Confidence 8899999999999998877643
No 168
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.77 E-value=11 Score=30.34 Aligned_cols=38 Identities=21% Similarity=0.244 Sum_probs=27.9
Q ss_pred hhHhHhhhcCceecCccccccCChhhHhhhhhhccCCCC
Q 038358 234 DDERKMMMVLGHKCSICLRVFSSGQALGGHKRCHWEKGD 272 (312)
Q Consensus 234 ~l~~H~~~H~~~~C~~C~k~F~~~~~L~~H~~~H~~~~~ 272 (312)
.|-.|+.-|.|++|++|.|. .-......|+-+..-++.
T Consensus 128 slP~hi~~~~g~KCPvC~K~-V~sDd~e~HlvMCLtkPr 165 (205)
T KOG0801|consen 128 SLPVHIMDHSGMKCPVCHKV-VPSDDAEIHLVMCLTKPR 165 (205)
T ss_pred ccceeeeccCCccCCccccc-cCCCcceEEEEEEecccc
Confidence 56688888999999999984 455566777766655543
No 170
>PRK04023 DNA polymerase II large subunit; Validated
Probab=36.57 E-value=33 Score=35.94 Aligned_cols=10 Identities=50% Similarity=1.282 Sum_probs=6.4
Q ss_pred cccCcccccc
Q 038358 78 TRPCSECGKK 87 (312)
Q Consensus 78 ~~~C~~C~k~ 87 (312)
...|+.||..
T Consensus 626 ~RfCpsCG~~ 635 (1121)
T PRK04023 626 RRKCPSCGKE 635 (1121)
T ss_pred CccCCCCCCc
Confidence 3567777765
No 171
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=36.26 E-value=19 Score=27.64 Aligned_cols=10 Identities=50% Similarity=1.364 Sum_probs=4.6
Q ss_pred eecCCCcccc
Q 038358 179 FECNSCKKVF 188 (312)
Q Consensus 179 ~~C~~C~~~F 188 (312)
+.|..||..|
T Consensus 72 ~~C~~Cg~~~ 81 (117)
T PRK00564 72 LECKDCSHVF 81 (117)
T ss_pred EEhhhCCCcc
Confidence 4444444444
No 172
>KOG2907 consensus RNA polymerase I transcription factor TFIIS, subunit A12.2/RPA12 [Transcription]
Probab=36.15 E-value=20 Score=27.08 Aligned_cols=12 Identities=25% Similarity=0.620 Sum_probs=10.7
Q ss_pred eecCccccccCC
Q 038358 245 HKCSICLRVFSS 256 (312)
Q Consensus 245 ~~C~~C~k~F~~ 256 (312)
|.|+.|++.|..
T Consensus 103 YTC~kC~~k~~e 114 (116)
T KOG2907|consen 103 YTCPKCKYKFTE 114 (116)
T ss_pred EEcCccceeeec
Confidence 999999999874
No 173
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.87 E-value=7 Score=27.23 Aligned_cols=10 Identities=20% Similarity=0.511 Sum_probs=6.2
Q ss_pred eecCcccccc
Q 038358 245 HKCSICLRVF 254 (312)
Q Consensus 245 ~~C~~C~k~F 254 (312)
-.|+.|+-.|
T Consensus 34 t~ce~c~a~~ 43 (82)
T COG2331 34 TTCEECGARL 43 (82)
T ss_pred ccChhhChHH
Confidence 5577777543
No 174
>KOG0782 consensus Predicted diacylglycerol kinase [Signal transduction mechanisms]
Probab=35.66 E-value=11 Score=36.74 Aligned_cols=54 Identities=17% Similarity=0.176 Sum_probs=35.4
Q ss_pred ChHHHHhHhhhcCCCCCcccccccCCCCCCCCcCCCCCccccchhhHhHhhhcCceecCccccccCChh
Q 038358 190 SHQALGGHRASHKHVKGCFAITRSSDGCEIDHDHCSDGIVKENVDDERKMMMVLGHKCSICLRVFSSGQ 258 (312)
Q Consensus 190 ~~~~L~~H~~~H~~~k~y~~~~~~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H~~~~C~~C~k~F~~~~ 258 (312)
..+.|.+|--+|.....- +|..|+|.|.++-.|..++..+ ..|..|..+|..+.
T Consensus 237 rE~~fvrHHWVHrrRqeG-----kC~~CgKgFQQKf~FhsKEivA----------isCSWCKqayH~Kv 290 (1004)
T KOG0782|consen 237 RESGFVRHHWVHRRRQEG-----KCNTCGKGFQQKFFFHSKEIVA----------ISCSWCKQAYHLKV 290 (1004)
T ss_pred ccccchHHhHhhHhhhcc-----ccchhhhhhhhheeeccccEEE----------EEehHHHHHhhcch
Confidence 345777777666544332 8999999998844222222222 78999999988766
No 175
>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=35.65 E-value=25 Score=22.20 Aligned_cols=11 Identities=18% Similarity=0.486 Sum_probs=5.8
Q ss_pred cceecCCCccc
Q 038358 177 CRFECNSCKKV 187 (312)
Q Consensus 177 k~~~C~~C~~~ 187 (312)
.-|.|++|+..
T Consensus 33 ~~w~CP~C~a~ 43 (47)
T PF00301_consen 33 DDWVCPVCGAP 43 (47)
T ss_dssp TT-B-TTTSSB
T ss_pred CCCcCcCCCCc
Confidence 34788888753
No 176
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=35.57 E-value=18 Score=27.52 Aligned_cols=7 Identities=29% Similarity=0.952 Sum_probs=3.7
Q ss_pred eecCccc
Q 038358 245 HKCSICL 251 (312)
Q Consensus 245 ~~C~~C~ 251 (312)
+.||.||
T Consensus 87 ~~CP~Cg 93 (113)
T PRK12380 87 AQCPHCH 93 (113)
T ss_pred ccCcCCC
Confidence 4455555
No 177
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=35.40 E-value=18 Score=20.46 Aligned_cols=8 Identities=25% Similarity=0.555 Sum_probs=5.5
Q ss_pred eecCcccc
Q 038358 245 HKCSICLR 252 (312)
Q Consensus 245 ~~C~~C~k 252 (312)
|.|+.|+.
T Consensus 20 ~vCp~C~~ 27 (30)
T PF08274_consen 20 LVCPECGH 27 (30)
T ss_dssp EEETTTTE
T ss_pred EeCCcccc
Confidence 77777764
No 178
>PF01096 TFIIS_C: Transcription factor S-II (TFIIS); InterPro: IPR001222 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIs (TFIIS). In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least eight different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, -IIH and -IIS []. During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. Such backtracking involves extrusion of the RNA 3'-end into the pore, and can lead to transcriptional arrest. Escape from arrest requires cleavage of the extruded RNA with the help of TFIIS, which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites []. TFIIS extends from the polymerase surface via a pore to the internal active site. Two essential and invariant acidic residues in a TFIIS loop complement the Pol II active site and could position a metal ion and a water molecule for hydrolytic RNA cleavage. TFIIS also induces extensive structural changes in Pol II that would realign nucleic acids in the active centre. TFIIS is a protein of about 300 amino acids. It contains three regions: a variable N-terminal domain not required for TFIIS activity; a conserved central domain required for Pol II binding; and a conserved C-terminal C4-type zinc finger essential for RNA cleavage. The zinc finger folds in a conformation termed a zinc ribbon [] characterised by a three-stranded antiparallel beta-sheet and two beta-hairpins. A backbone model for Pol II-TFIIS complex was obtained from X-ray analysis. It shows that a beta hairpin protrudes from the zinc finger and complements the pol II active site []. Some viral proteins also contain the TFIIS zinc ribbon C-terminal domain. The Vaccinia virus protein, unlike its eukaryotic homologue, is an integral RNA polymerase subunit rather than a readily separable transcription factor []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0006351 transcription, DNA-dependent; PDB: 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I 3I4M_I ....
Probab=33.84 E-value=11 Score=22.73 Aligned_cols=10 Identities=20% Similarity=0.474 Sum_probs=8.4
Q ss_pred eecCcccccc
Q 038358 245 HKCSICLRVF 254 (312)
Q Consensus 245 ~~C~~C~k~F 254 (312)
|.|..|+..|
T Consensus 29 y~C~~C~~~w 38 (39)
T PF01096_consen 29 YVCCNCGHRW 38 (39)
T ss_dssp EEESSSTEEE
T ss_pred EEeCCCCCee
Confidence 8899998776
No 179
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=33.25 E-value=24 Score=32.09 Aligned_cols=24 Identities=33% Similarity=0.441 Sum_probs=21.6
Q ss_pred cccCccccccCCChHHHHHHHHhC
Q 038358 78 TRPCSECGKKFWSWKALFGHMRCH 101 (312)
Q Consensus 78 ~~~C~~C~k~f~~~~~L~~H~~~H 101 (312)
.++|-+|.+.|..+..|+.||+..
T Consensus 195 r~~CLyCekifrdkntLkeHMrkK 218 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRKK 218 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHhc
Confidence 478999999999999999999853
No 180
>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=33.09 E-value=20 Score=21.87 Aligned_cols=15 Identities=27% Similarity=0.465 Sum_probs=12.0
Q ss_pred eecCccccccCChhh
Q 038358 245 HKCSICLRVFSSGQA 259 (312)
Q Consensus 245 ~~C~~C~k~F~~~~~ 259 (312)
|.|..||..|.....
T Consensus 6 y~C~~Cg~~fe~~~~ 20 (42)
T PF09723_consen 6 YRCEECGHEFEVLQS 20 (42)
T ss_pred EEeCCCCCEEEEEEE
Confidence 899999988876543
No 181
>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=32.77 E-value=22 Score=27.09 Aligned_cols=11 Identities=27% Similarity=0.821 Sum_probs=5.3
Q ss_pred eecCCCccccC
Q 038358 179 FECNSCKKVFG 189 (312)
Q Consensus 179 ~~C~~C~~~F~ 189 (312)
+.|..||..|.
T Consensus 71 ~~C~~Cg~~~~ 81 (115)
T TIGR00100 71 CECEDCSEEVS 81 (115)
T ss_pred EEcccCCCEEe
Confidence 44555554443
No 182
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=32.17 E-value=8.6 Score=35.94 Aligned_cols=81 Identities=21% Similarity=0.262 Sum_probs=40.7
Q ss_pred ceecCCCccc-----cCChHHHHhHh--hhcCCCCCcccccccCCCCCCCCcCCCCCccccch--hhHhHhhhcCc-eec
Q 038358 178 RFECNSCKKV-----FGSHQALGGHR--ASHKHVKGCFAITRSSDGCEIDHDHCSDGIVKENV--DDERKMMMVLG-HKC 247 (312)
Q Consensus 178 ~~~C~~C~~~-----F~~~~~L~~H~--~~H~~~k~y~~~~~~C~~C~~~f~~~~~~~~~~~~--~l~~H~~~H~~-~~C 247 (312)
=|.|-+|.+. |+--..-+.|- -.|..--| +|..|++-..-..- .+.. ....-...|-. |+|
T Consensus 360 CF~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kfAP------rCs~C~~PI~P~~G---~~etvRvvamdr~fHv~CY~C 430 (468)
T KOG1701|consen 360 CFTCVVCARCLDGIPFTVDSQNNVYCVPDFHKKFAP------RCSVCGNPILPRDG---KDETVRVVAMDRDFHVNCYKC 430 (468)
T ss_pred ceEEEEeccccCCccccccCCCceeeehhhhhhcCc------chhhccCCccCCCC---CcceEEEEEccccccccceeh
Confidence 4778777665 44333333331 13444444 78888764332110 0000 00011124555 999
Q ss_pred CccccccCCh------hhHhhhhhhc
Q 038358 248 SICLRVFSSG------QALGGHKRCH 267 (312)
Q Consensus 248 ~~C~k~F~~~------~~L~~H~~~H 267 (312)
+.||...+.. .-|..|+..|
T Consensus 431 EDCg~~LS~e~e~qgCyPld~HllCk 456 (468)
T KOG1701|consen 431 EDCGLLLSSEEEGQGCYPLDGHLLCK 456 (468)
T ss_pred hhcCccccccCCCCcceeccCceeec
Confidence 9999887733 2466776443
No 183
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=32.02 E-value=31 Score=25.59 Aligned_cols=15 Identities=20% Similarity=0.231 Sum_probs=11.8
Q ss_pred cccCCCCCCCCcCCC
Q 038358 211 TRSSDGCEIDHDHCS 225 (312)
Q Consensus 211 ~~~C~~C~~~f~~~~ 225 (312)
++.|..||..|...+
T Consensus 2 pH~CtrCG~vf~~g~ 16 (112)
T COG3364 2 PHQCTRCGEVFDDGS 16 (112)
T ss_pred Cceeccccccccccc
Confidence 368999999998844
No 184
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=31.98 E-value=34 Score=21.89 Aligned_cols=11 Identities=18% Similarity=0.250 Sum_probs=8.3
Q ss_pred eecCccccccC
Q 038358 245 HKCSICLRVFS 255 (312)
Q Consensus 245 ~~C~~C~k~F~ 255 (312)
+.|..||..+-
T Consensus 38 ~~C~~Cgyt~~ 48 (50)
T PRK00432 38 WHCGKCGYTEF 48 (50)
T ss_pred EECCCcCCEEe
Confidence 88888887653
No 185
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=31.93 E-value=36 Score=26.58 Aligned_cols=12 Identities=33% Similarity=0.700 Sum_probs=7.7
Q ss_pred eecCccccccCC
Q 038358 245 HKCSICLRVFSS 256 (312)
Q Consensus 245 ~~C~~C~k~F~~ 256 (312)
|.|+.|++.|..
T Consensus 54 yrC~~C~~tf~~ 65 (129)
T COG3677 54 YKCKSCGSTFTV 65 (129)
T ss_pred cccCCcCcceee
Confidence 666666666654
No 186
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=31.87 E-value=56 Score=32.10 Aligned_cols=31 Identities=23% Similarity=0.358 Sum_probs=26.3
Q ss_pred CCCCCcccCccccccCCChHHHHHHHHhCCC
Q 038358 73 GAPKITRPCSECGKKFWSWKALFGHMRCHPE 103 (312)
Q Consensus 73 ~~~~~~~~C~~C~k~f~~~~~L~~H~~~H~~ 103 (312)
.....+..|..||.+|........||.+|..
T Consensus 413 Ly~~~pnqC~~CG~R~~~~ee~sk~md~H~d 443 (579)
T KOG2071|consen 413 LYKDSPNQCKSCGLRFDDSEERSKHMDIHDD 443 (579)
T ss_pred hccCCcchhcccccccccchhhhhHhhhhhh
Confidence 3445567999999999999999999999885
No 187
>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=31.75 E-value=32 Score=33.56 Aligned_cols=11 Identities=9% Similarity=0.144 Sum_probs=7.2
Q ss_pred cCCCCCCCCcC
Q 038358 213 SSDGCEIDHDH 223 (312)
Q Consensus 213 ~C~~C~~~f~~ 223 (312)
.|..||....-
T Consensus 242 ~Ch~Cg~~~~~ 252 (505)
T TIGR00595 242 RCHYCGYQEPI 252 (505)
T ss_pred EcCCCcCcCCC
Confidence 77777765543
No 188
>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=30.10 E-value=22 Score=31.09 Aligned_cols=42 Identities=19% Similarity=0.221 Sum_probs=23.1
Q ss_pred hCCCCCCCCCCCCCCCCCCCCcchhhHHHhhhccCccccccccc
Q 038358 100 CHPERQWRGINPPPNFRRPASPVKEVTSVENVMTVEDHEVAACL 143 (312)
Q Consensus 100 ~H~~~~~~C~~c~~~f~c~~c~~~~~~~~~~~~~~~~~~C~~C~ 143 (312)
-|.|+.|+|..|. .|-|..-.+.|...- .+...+.|+|.-|.
T Consensus 137 ~hGGrif~CsfC~-~flCEDDQFEHQAsC-QvLe~E~~KC~SCN 178 (314)
T PF06524_consen 137 DHGGRIFKCSFCD-NFLCEDDQFEHQASC-QVLESETFKCQSCN 178 (314)
T ss_pred cCCCeEEEeecCC-Ceeeccchhhhhhhh-hhhhcccccccccc
Confidence 4667777777774 255543333322221 24555678887773
No 189
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=29.80 E-value=32 Score=20.32 Aligned_cols=11 Identities=9% Similarity=-0.070 Sum_probs=6.8
Q ss_pred cCCCCCCCCcC
Q 038358 213 SSDGCEIDHDH 223 (312)
Q Consensus 213 ~C~~C~~~f~~ 223 (312)
.|.+|+..+-.
T Consensus 10 ~C~~C~~~~~~ 20 (36)
T PF11781_consen 10 PCPVCGSRWFY 20 (36)
T ss_pred cCCCCCCeEeE
Confidence 57777766443
No 190
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=28.02 E-value=15 Score=27.96 Aligned_cols=12 Identities=8% Similarity=0.329 Sum_probs=7.5
Q ss_pred ccCCCCCCCCcC
Q 038358 212 RSSDGCEIDHDH 223 (312)
Q Consensus 212 ~~C~~C~~~f~~ 223 (312)
..|..||+.|.-
T Consensus 71 ~~C~~Cg~~~~~ 82 (113)
T PF01155_consen 71 ARCRDCGHEFEP 82 (113)
T ss_dssp EEETTTS-EEEC
T ss_pred EECCCCCCEEec
Confidence 467777777665
No 191
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=26.97 E-value=46 Score=20.75 Aligned_cols=27 Identities=30% Similarity=0.429 Sum_probs=17.3
Q ss_pred eecCccccccCChhhHhhhhhhccCCCC
Q 038358 245 HKCSICLRVFSSGQALGGHKRCHWEKGD 272 (312)
Q Consensus 245 ~~C~~C~k~F~~~~~L~~H~~~H~~~~~ 272 (312)
|.|-.|+..+...... .|...|..+..
T Consensus 12 ~~CL~C~~~~c~~~~~-~h~~~H~~~t~ 38 (50)
T smart00290 12 WLCLTCGQVGCGRYQL-GHALEHFEETG 38 (50)
T ss_pred EEecCCCCcccCCCCC-cHHHHHhhhhC
Confidence 7888888877755332 46667765433
No 192
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=26.92 E-value=57 Score=35.19 Aligned_cols=11 Identities=9% Similarity=0.202 Sum_probs=7.3
Q ss_pred ccCCCCCCCCc
Q 038358 212 RSSDGCEIDHD 222 (312)
Q Consensus 212 ~~C~~C~~~f~ 222 (312)
+.|+.||....
T Consensus 693 y~CPsCGaev~ 703 (1337)
T PRK14714 693 YVCPDCGAEVP 703 (1337)
T ss_pred eeCccCCCccC
Confidence 37888877544
No 193
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=26.48 E-value=23 Score=29.58 Aligned_cols=44 Identities=18% Similarity=0.133 Sum_probs=26.1
Q ss_pred ccccccccchhccCCCCCCCccccCchhHHhHHhhhcCCCCcceecCCCccc
Q 038358 136 DHEVAACLLMLANGDVGVGTGSFQQGIQVQDTNEVNLGGVSCRFECNSCKKV 187 (312)
Q Consensus 136 ~~~C~~C~~~f~~~~~~~C~k~F~~~~~L~~H~~~H~~~~~k~~~C~~C~~~ 187 (312)
||.|.+|.+.|.+.-...||-.|-..-..+.- .+--.|-+||+.
T Consensus 196 PF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y--------~kg~~C~~Cgk~ 239 (259)
T COG5152 196 PFLCGICKKDYESPVVTECGHSFCSLCAIRKY--------QKGDECGVCGKA 239 (259)
T ss_pred ceeehhchhhccchhhhhcchhHHHHHHHHHh--------ccCCcceecchh
Confidence 79999997766666555666666544443322 223356666654
No 194
>KOG4377 consensus Zn-finger protein [General function prediction only]
Probab=26.31 E-value=83 Score=29.54 Aligned_cols=80 Identities=18% Similarity=0.184 Sum_probs=48.2
Q ss_pred Ccceec--CCCccccCChHHHHhHhhhcCCCCCc-------ccccccC--CCCCCCCcCCCCCccccchhhHhHhhhcCc
Q 038358 176 SCRFEC--NSCKKVFGSHQALGGHRASHKHVKGC-------FAITRSS--DGCEIDHDHCSDGIVKENVDDERKMMMVLG 244 (312)
Q Consensus 176 ~k~~~C--~~C~~~F~~~~~L~~H~~~H~~~k~y-------~~~~~~C--~~C~~~f~~~~~~~~~~~~~l~~H~~~H~~ 244 (312)
..-|.| +.|+..+-++....+|..+|...... +.-.|-| ..|.+..+ +...|...|+.
T Consensus 269 rEhyhcl~e~C~ykr~~k~DvirH~~~hkkrdnsL~dgf~rfs~syhC~~~~C~ksTs-----------dV~~h~nFht~ 337 (480)
T KOG4377|consen 269 REHYHCLNEYCFYKRGQKNDVIRHVEIHKKRDNSLIDGFHRFSNSYHCTGQICEKSTS-----------DVLLHDNFHTD 337 (480)
T ss_pred chhhcccCccccccccchhhhHHHHHHHhhcccccccchhhcCccchhhhcccCcccc-----------cccccCccccc
Confidence 344677 56998888899999999988644321 1112344 67887322 33455544443
Q ss_pred ----------eecCccccccCChhhHhhhhhhcc
Q 038358 245 ----------HKCSICLRVFSSGQALGGHKRCHW 268 (312)
Q Consensus 245 ----------~~C~~C~k~F~~~~~L~~H~~~H~ 268 (312)
|.|-.||=++..+ ...|...|-
T Consensus 338 ~~n~GfrrthfhC~r~gCTdtfK--~~khk~yh~ 369 (480)
T KOG4377|consen 338 KRNNGFRRTHFHCQRIGCTDTFK--DSKHKPYHY 369 (480)
T ss_pred cccCceecceeEEeccCCccccc--ccccccccc
Confidence 8898888444444 455655553
No 195
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=26.15 E-value=45 Score=31.44 Aligned_cols=37 Identities=19% Similarity=0.372 Sum_probs=25.9
Q ss_pred CcceecCCCccccCChHHHHhHhhhcCCCCCcccccccCCCCCCC
Q 038358 176 SCRFECNSCKKVFGSHQALGGHRASHKHVKGCFAITRSSDGCEID 220 (312)
Q Consensus 176 ~k~~~C~~C~~~F~~~~~L~~H~~~H~~~k~y~~~~~~C~~C~~~ 220 (312)
..-|.|+.|.+.|.....++.=- .-.+ .|.|..|+--
T Consensus 126 ~~~Y~Cp~C~kkyt~Lea~~L~~-~~~~-------~F~C~~C~ge 162 (436)
T KOG2593|consen 126 VAGYVCPNCQKKYTSLEALQLLD-NETG-------EFHCENCGGE 162 (436)
T ss_pred cccccCCccccchhhhHHHHhhc-ccCc-------eEEEecCCCc
Confidence 56799999999999877655321 1122 2799999854
No 196
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=25.01 E-value=18 Score=36.40 Aligned_cols=18 Identities=22% Similarity=0.648 Sum_probs=10.0
Q ss_pred cceecCCCccccCChHHH
Q 038358 177 CRFECNSCKKVFGSHQAL 194 (312)
Q Consensus 177 k~~~C~~C~~~F~~~~~L 194 (312)
|.=+||.|+..|..-.-+
T Consensus 677 RqRKCP~Cn~aFganDv~ 694 (698)
T KOG0978|consen 677 RQRKCPKCNAAFGANDVH 694 (698)
T ss_pred hcCCCCCCCCCCCccccc
Confidence 344666666666554433
No 197
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=25.01 E-value=33 Score=26.29 Aligned_cols=22 Identities=32% Similarity=0.538 Sum_probs=20.4
Q ss_pred eecCccccccCChhhHhhhhhh
Q 038358 245 HKCSICLRVFSSGQALGGHKRC 266 (312)
Q Consensus 245 ~~C~~C~k~F~~~~~L~~H~~~ 266 (312)
|-|-.|.+-|.+...|..|.++
T Consensus 58 fyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 58 FYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred eehhhhhhhhcchHHHHHHHhc
Confidence 8899999999999999999864
No 198
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=24.69 E-value=41 Score=24.38 Aligned_cols=12 Identities=25% Similarity=0.490 Sum_probs=8.5
Q ss_pred CcceecCCCccc
Q 038358 176 SCRFECNSCKKV 187 (312)
Q Consensus 176 ~k~~~C~~C~~~ 187 (312)
.+|-+|+.|...
T Consensus 74 k~pSRCP~CKSE 85 (97)
T COG3357 74 KKPSRCPKCKSE 85 (97)
T ss_pred CCcccCCcchhh
Confidence 458888888543
No 199
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.25 E-value=17 Score=31.24 Aligned_cols=44 Identities=16% Similarity=0.155 Sum_probs=30.6
Q ss_pred CcceecCCCccccCChHHHHhHhhhcCCCCC----------cccccccCCCCCC
Q 038358 176 SCRFECNSCKKVFGSHQALGGHRASHKHVKG----------CFAITRSSDGCEI 219 (312)
Q Consensus 176 ~k~~~C~~C~~~F~~~~~L~~H~~~H~~~k~----------y~~~~~~C~~C~~ 219 (312)
++.+.|++|+-.|....-+..-+++-.|+-. |+-.+..|+.|..
T Consensus 17 kk~ieCPvC~tkFkkeev~tgsiRiiagDld~~lkygninP~fY~VvvCP~C~y 70 (267)
T COG1655 17 KKTIECPVCNTKFKKEEVKTGSIRIIAGDLDFFLKYGNINPYFYDVVVCPICYY 70 (267)
T ss_pred hceeccCcccchhhhhheeccceeEecccccceeeccccCCceeEEEEcchhhH
Confidence 5788999999999888777666676665543 2112356777775
No 200
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=24.09 E-value=38 Score=20.64 Aligned_cols=10 Identities=30% Similarity=0.527 Sum_probs=6.7
Q ss_pred eecCcccccc
Q 038358 245 HKCSICLRVF 254 (312)
Q Consensus 245 ~~C~~C~k~F 254 (312)
+.|..||...
T Consensus 20 ~vC~~CG~Vl 29 (43)
T PF08271_consen 20 LVCPNCGLVL 29 (43)
T ss_dssp EEETTT-BBE
T ss_pred EECCCCCCEe
Confidence 7888888653
No 201
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=23.78 E-value=72 Score=28.73 Aligned_cols=27 Identities=33% Similarity=0.512 Sum_probs=22.7
Q ss_pred CcceecCCCccccCChHHHHhHhhhcC
Q 038358 176 SCRFECNSCKKVFGSHQALGGHRASHK 202 (312)
Q Consensus 176 ~k~~~C~~C~~~F~~~~~L~~H~~~H~ 202 (312)
.-.|+|+.|...|...-+.-.|...|.
T Consensus 386 s~rY~Ce~CK~~FC~dCdvfiHe~Lh~ 412 (421)
T COG5151 386 SGRYQCELCKSTFCSDCDVFIHETLHF 412 (421)
T ss_pred ccceechhhhhhhhhhhHHHHHHHHhh
Confidence 457999999999999888888877773
No 202
>COG1439 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]
Probab=23.62 E-value=35 Score=28.17 Aligned_cols=12 Identities=17% Similarity=0.301 Sum_probs=8.1
Q ss_pred ccCCCCCCCCcC
Q 038358 212 RSSDGCEIDHDH 223 (312)
Q Consensus 212 ~~C~~C~~~f~~ 223 (312)
+.|..|.+.|..
T Consensus 140 ~rC~GC~~~f~~ 151 (177)
T COG1439 140 LRCHGCKRIFPE 151 (177)
T ss_pred EEEecCceecCC
Confidence 467777777773
No 203
>KOG0402 consensus 60S ribosomal protein L37 [Translation, ribosomal structure and biogenesis]
Probab=23.49 E-value=39 Score=24.06 Aligned_cols=12 Identities=33% Similarity=0.822 Sum_probs=9.1
Q ss_pred eecCccccccCC
Q 038358 245 HKCSICLRVFSS 256 (312)
Q Consensus 245 ~~C~~C~k~F~~ 256 (312)
+.|.-|.+.|.-
T Consensus 55 W~C~~C~kv~ag 66 (92)
T KOG0402|consen 55 WKCGSCKKVVAG 66 (92)
T ss_pred EecCCccceecc
Confidence 788888887754
No 204
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=23.36 E-value=39 Score=31.97 Aligned_cols=28 Identities=32% Similarity=0.571 Sum_probs=24.2
Q ss_pred eecCccccccCChhhHhhhhh-hccCCCC
Q 038358 245 HKCSICLRVFSSGQALGGHKR-CHWEKGD 272 (312)
Q Consensus 245 ~~C~~C~k~F~~~~~L~~H~~-~H~~~~~ 272 (312)
|.||+|.+-|.....|..|.. .|.++..
T Consensus 16 flCPiC~~dl~~~~~L~~H~d~eH~~ed~ 44 (505)
T KOG1842|consen 16 FLCPICLLDLPNLSALNDHLDVEHFEEDE 44 (505)
T ss_pred ccCchHhhhhhhHHHHHHHHhhhccccch
Confidence 999999999999999999985 5666554
No 205
>KOG0782 consensus Predicted diacylglycerol kinase [Signal transduction mechanisms]
Probab=23.36 E-value=28 Score=33.96 Aligned_cols=42 Identities=14% Similarity=0.158 Sum_probs=26.3
Q ss_pred CCCCcCCCCCccccchhhHhHhhhcCc---eecCccccccCChhhH
Q 038358 218 EIDHDHCSDGIVKENVDDERKMMMVLG---HKCSICLRVFSSGQAL 260 (312)
Q Consensus 218 ~~~f~~~~~~~~~~~~~l~~H~~~H~~---~~C~~C~k~F~~~~~L 260 (312)
.-.|...++-..++. .+.+|..+|.. =+|..|||.|-++..+
T Consensus 225 KptFRe~gsr~~rE~-~fvrHHWVHrrRqeGkC~~CgKgFQQKf~F 269 (1004)
T KOG0782|consen 225 KPTFREYGSRKTRES-GFVRHHWVHRRRQEGKCNTCGKGFQQKFFF 269 (1004)
T ss_pred ccchhhccccCcccc-cchHHhHhhHhhhccccchhhhhhhhheee
Confidence 344554443333322 55677666665 5899999999887654
No 206
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=23.26 E-value=38 Score=19.30 Aligned_cols=14 Identities=29% Similarity=0.477 Sum_probs=9.4
Q ss_pred cCc-eecCccccccC
Q 038358 242 VLG-HKCSICLRVFS 255 (312)
Q Consensus 242 H~~-~~C~~C~k~F~ 255 (312)
|.. |.|..|++.+.
T Consensus 24 H~~Cf~C~~C~~~L~ 38 (39)
T smart00132 24 HPECFKCSKCGKPLG 38 (39)
T ss_pred cccCCCCcccCCcCc
Confidence 444 78888887653
No 207
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=23.20 E-value=49 Score=20.76 Aligned_cols=15 Identities=20% Similarity=0.157 Sum_probs=10.0
Q ss_pred eecCccccccCChhh
Q 038358 245 HKCSICLRVFSSGQA 259 (312)
Q Consensus 245 ~~C~~C~k~F~~~~~ 259 (312)
|.|+.||..+.....
T Consensus 21 ~vC~~Cg~~~~~~~~ 35 (52)
T smart00661 21 FVCRKCGYEEPIEQK 35 (52)
T ss_pred EECCcCCCeEECCCc
Confidence 778888876655433
No 208
>KOG2857 consensus Predicted MYND Zn-finger protein/hormone receptor interactor [Transcription]
Probab=23.15 E-value=95 Score=24.57 Aligned_cols=21 Identities=29% Similarity=0.399 Sum_probs=19.2
Q ss_pred eecCccccccCChhhHhhhhh
Q 038358 245 HKCSICLRVFSSGQALGGHKR 265 (312)
Q Consensus 245 ~~C~~C~k~F~~~~~L~~H~~ 265 (312)
|+|+.|.--|.+..-++.|+.
T Consensus 18 YKCpkC~vPYCSl~CfKiHk~ 38 (157)
T KOG2857|consen 18 YKCPKCSVPYCSLPCFKIHKS 38 (157)
T ss_pred ccCCCCCCccccchhhhhccC
Confidence 999999999999999988876
No 209
>PRK05580 primosome assembly protein PriA; Validated
Probab=22.89 E-value=58 Score=33.11 Aligned_cols=10 Identities=10% Similarity=0.318 Sum_probs=6.3
Q ss_pred cCCCCCCCCc
Q 038358 213 SSDGCEIDHD 222 (312)
Q Consensus 213 ~C~~C~~~f~ 222 (312)
.|..||+...
T Consensus 410 ~Ch~Cg~~~~ 419 (679)
T PRK05580 410 RCHHCGYQEP 419 (679)
T ss_pred ECCCCcCCCC
Confidence 6777776544
No 210
>PRK04351 hypothetical protein; Provisional
Probab=22.72 E-value=42 Score=26.95 Aligned_cols=33 Identities=12% Similarity=0.134 Sum_probs=21.9
Q ss_pred ccccCCCCCCCCcCCCCCccccchhhHhHhhhcC-c-eecCccccccCCh
Q 038358 210 ITRSSDGCEIDHDHCSDGIVKENVDDERKMMMVL-G-HKCSICLRVFSSG 257 (312)
Q Consensus 210 ~~~~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H~-~-~~C~~C~k~F~~~ 257 (312)
+.|.|..||..+.. + |.|. . |.|..|+-.+...
T Consensus 111 y~Y~C~~Cg~~~~r--------------~-Rr~n~~~yrCg~C~g~L~~~ 145 (149)
T PRK04351 111 YLYECQSCGQQYLR--------------K-RRINTKRYRCGKCRGKLKLI 145 (149)
T ss_pred EEEECCCCCCEeee--------------e-eecCCCcEEeCCCCcEeeec
Confidence 35799999976544 1 2223 3 9999999776543
No 211
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=22.54 E-value=45 Score=26.43 Aligned_cols=32 Identities=16% Similarity=0.260 Sum_probs=18.1
Q ss_pred cccCCCCCCCCcCCCCCccccchhhHhHhhhcCc-eecCccccccC
Q 038358 211 TRSSDGCEIDHDHCSDGIVKENVDDERKMMMVLG-HKCSICLRVFS 255 (312)
Q Consensus 211 ~~~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H~~-~~C~~C~k~F~ 255 (312)
.|.|..|+..+.... +|..+ . |.|..|+-.|.
T Consensus 112 ~y~C~~C~~~~~~~r-----------r~~~~--~~y~C~~C~g~l~ 144 (146)
T smart00731 112 PYRCTGCGQRYLRVR-----------RSNNV--SRYRCGKCGGKLI 144 (146)
T ss_pred EEECCCCCCCCceEc-----------cccCc--ceEEcCCCCCEEE
Confidence 467877876654311 22111 2 88888886653
No 212
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=22.34 E-value=44 Score=31.88 Aligned_cols=21 Identities=29% Similarity=0.642 Sum_probs=18.8
Q ss_pred eecCccccccCChhhHhhhhh
Q 038358 245 HKCSICLRVFSSGQALGGHKR 265 (312)
Q Consensus 245 ~~C~~C~k~F~~~~~L~~H~~ 265 (312)
+-|.+|+|+|.+...|.+|..
T Consensus 293 lyC~vCnKsFKseKq~kNHEn 313 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHEN 313 (508)
T ss_pred eEEeeccccccchHHHHhhHH
Confidence 779999999999999999964
No 213
>PF12773 DZR: Double zinc ribbon
Probab=22.26 E-value=82 Score=19.60 Aligned_cols=10 Identities=20% Similarity=0.521 Sum_probs=6.8
Q ss_pred ecCCCccccC
Q 038358 180 ECNSCKKVFG 189 (312)
Q Consensus 180 ~C~~C~~~F~ 189 (312)
.|..||....
T Consensus 14 fC~~CG~~l~ 23 (50)
T PF12773_consen 14 FCPHCGTPLP 23 (50)
T ss_pred CChhhcCChh
Confidence 4777777665
No 214
>cd02343 ZZ_EF Zinc finger, ZZ type. Zinc finger present in proteins with an EF_hand motif. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=22.02 E-value=36 Score=21.59 Aligned_cols=19 Identities=32% Similarity=0.618 Sum_probs=10.7
Q ss_pred ccccccCChhhHhhhhhhc
Q 038358 249 ICLRVFSSGQALGGHKRCH 267 (312)
Q Consensus 249 ~C~k~F~~~~~L~~H~~~H 267 (312)
.|..-|........|...|
T Consensus 25 lC~~Cf~~g~~~~~H~~~H 43 (48)
T cd02343 25 LCKTCFLGGVKPEGHEDDH 43 (48)
T ss_pred hHHHHHhCCccCCCCCCCC
Confidence 3555566655555665555
No 215
>KOG0696 consensus Serine/threonine protein kinase [Signal transduction mechanisms]
Probab=21.10 E-value=31 Score=32.65 Aligned_cols=47 Identities=15% Similarity=0.188 Sum_probs=31.7
Q ss_pred HHhHHhhhcCCCCcceecCCCccccCChHHHHhHh-hhcCCCCCcccccccCCCCC
Q 038358 164 VQDTNEVNLGGVSCRFECNSCKKVFGSHQALGGHR-ASHKHVKGCFAITRSSDGCE 218 (312)
Q Consensus 164 L~~H~~~H~~~~~k~~~C~~C~~~F~~~~~L~~H~-~~H~~~k~y~~~~~~C~~C~ 218 (312)
+..|.|-|. -..|.|+--++.+.+-..-.+|. ++|+=.-|- =|+.||
T Consensus 81 fvvHkrChe---fVtF~CPGadkg~dtDdpr~kHkf~~~tYssPT-----FCDhCG 128 (683)
T KOG0696|consen 81 FVVHKRCHE---FVTFSCPGADKGPDTDDPRSKHKFKIHTYSSPT-----FCDHCG 128 (683)
T ss_pred ehhhhhhcc---eEEEECCCCCCCCCCCCcccccceeeeecCCCc-----hhhhHH
Confidence 456777775 46788888888888777777774 456544442 466666
No 216
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.76 E-value=76 Score=23.90 Aligned_cols=20 Identities=5% Similarity=-0.077 Sum_probs=14.5
Q ss_pred CcceecCCCccccCChHHHHh
Q 038358 176 SCRFECNSCKKVFGSHQALGG 196 (312)
Q Consensus 176 ~k~~~C~~C~~~F~~~~~L~~ 196 (312)
..|..|+.||+.|. .+.|..
T Consensus 24 rdPiVsPytG~s~P-~s~fe~ 43 (129)
T COG4530 24 RDPIVSPYTGKSYP-RSYFEE 43 (129)
T ss_pred CCccccCcccccch-HHHHHh
Confidence 67889999999994 444443
No 217
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=20.75 E-value=79 Score=34.23 Aligned_cols=8 Identities=13% Similarity=0.007 Sum_probs=4.9
Q ss_pred cccccccc
Q 038358 136 DHEVAACL 143 (312)
Q Consensus 136 ~~~C~~C~ 143 (312)
.|.|+.||
T Consensus 692 vy~CPsCG 699 (1337)
T PRK14714 692 VYVCPDCG 699 (1337)
T ss_pred ceeCccCC
Confidence 46666664
No 218
>PF03811 Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR003220 Insertion elements are mobile elements in DNA, usually encoding proteins required for transposition, for example transposases. Protein InsA is absolutely required for transposition of insertion element 1. This entry represents a short zinc binding domain found in IS1 InsA family protein. It is found at the N terminus of the protein and may be a DNA-binding domain.; GO: 0006313 transposition, DNA-mediated
Probab=20.37 E-value=55 Score=19.34 Aligned_cols=27 Identities=15% Similarity=0.324 Sum_probs=15.3
Q ss_pred ccCCCCCCCCcCCCCCccccchhhHhHhhhcCc---eecCcc
Q 038358 212 RSSDGCEIDHDHCSDGIVKENVDDERKMMMVLG---HKCSIC 250 (312)
Q Consensus 212 ~~C~~C~~~f~~~~~~~~~~~~~l~~H~~~H~~---~~C~~C 250 (312)
..|+.|+..= .+.+|=+...| |.|..|
T Consensus 6 v~CP~C~s~~------------~v~k~G~~~~G~qryrC~~C 35 (36)
T PF03811_consen 6 VHCPRCQSTE------------GVKKNGKSPSGHQRYRCKDC 35 (36)
T ss_pred eeCCCCCCCC------------cceeCCCCCCCCEeEecCcC
Confidence 4677777542 12344444444 889887
No 219
>COG4640 Predicted membrane protein [Function unknown]
Probab=20.14 E-value=70 Score=29.88 Aligned_cols=18 Identities=28% Similarity=0.545 Sum_probs=13.3
Q ss_pred eecCccccccCChhhHhh
Q 038358 245 HKCSICLRVFSSGQALGG 262 (312)
Q Consensus 245 ~~C~~C~k~F~~~~~L~~ 262 (312)
++|+.||..|.....+.+
T Consensus 16 ~qC~qCG~~~t~~~sqan 33 (465)
T COG4640 16 VQCTQCGHKFTSRQSQAN 33 (465)
T ss_pred ccccccCCcCCchhhhhh
Confidence 568888888887766544
No 220
>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=20.11 E-value=44 Score=20.40 Aligned_cols=15 Identities=33% Similarity=0.755 Sum_probs=10.0
Q ss_pred cceecCCCccccCCh
Q 038358 177 CRFECNSCKKVFGSH 191 (312)
Q Consensus 177 k~~~C~~C~~~F~~~ 191 (312)
-||.|+.|++.|-..
T Consensus 12 ~~~~C~~C~~~FC~~ 26 (43)
T PF01428_consen 12 LPFKCKHCGKSFCLK 26 (43)
T ss_dssp SHEE-TTTS-EE-TT
T ss_pred CCeECCCCCcccCcc
Confidence 589999999999754
No 221
>cd02341 ZZ_ZZZ3 Zinc finger, ZZ type. Zinc finger present in ZZZ3 (ZZ finger containing 3) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=20.10 E-value=85 Score=19.84 Aligned_cols=7 Identities=43% Similarity=0.804 Sum_probs=4.2
Q ss_pred eecCccc
Q 038358 245 HKCSICL 251 (312)
Q Consensus 245 ~~C~~C~ 251 (312)
|+|..|.
T Consensus 16 ~~C~~C~ 22 (48)
T cd02341 16 YHCSECD 22 (48)
T ss_pred EECCCCC
Confidence 6666655
Done!