Query 046329
Match_columns 280
No_of_seqs 304 out of 2606
Neff 9.9
Searched_HMMs 46136
Date Fri Mar 29 10:58:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/046329.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/046329hhsearch_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 100.0 8.2E-31 1.8E-35 208.4 8.7 135 83-248 125-265 (279)
2 KOG2462 C2H2-type Zn-finger pr 100.0 2.3E-28 5E-33 194.5 10.4 125 113-266 127-254 (279)
3 KOG1074 Transcriptional repres 99.9 1.7E-23 3.8E-28 187.6 3.9 85 183-267 615-721 (958)
4 KOG3576 Ovo and related transc 99.8 1.5E-20 3.2E-25 142.8 6.3 113 112-253 113-239 (267)
5 KOG3608 Zn finger proteins [Ge 99.8 6.2E-21 1.3E-25 156.2 3.2 164 92-267 183-364 (467)
6 KOG1074 Transcriptional repres 99.7 3E-19 6.4E-24 160.7 2.5 60 80-139 597-656 (958)
7 KOG3608 Zn finger proteins [Ge 99.7 1.7E-18 3.8E-23 141.9 2.6 126 117-271 178-308 (467)
8 KOG3623 Homeobox transcription 99.6 1.2E-16 2.6E-21 142.0 -0.2 121 86-222 208-330 (1007)
9 KOG3576 Ovo and related transc 99.6 4.4E-16 9.5E-21 118.6 1.3 118 78-224 107-235 (267)
10 KOG3623 Homeobox transcription 99.5 1.2E-15 2.5E-20 135.8 1.6 78 158-247 891-971 (1007)
11 PLN03086 PRLI-interacting fact 99.3 3E-12 6.5E-17 114.6 8.1 135 87-269 406-555 (567)
12 PLN03086 PRLI-interacting fact 99.3 3.6E-12 7.8E-17 114.2 7.3 118 89-251 434-565 (567)
13 PHA00733 hypothetical protein 99.3 2.2E-12 4.8E-17 94.8 3.4 85 160-251 39-124 (128)
14 PHA02768 hypothetical protein; 99.1 3.7E-11 8E-16 72.9 1.3 33 183-217 15-47 (55)
15 PHA02768 hypothetical protein; 99.0 1.8E-10 4E-15 69.9 2.5 46 228-276 6-52 (55)
16 KOG3993 Transcription factor ( 99.0 1.4E-10 3E-15 98.1 0.9 156 86-253 265-485 (500)
17 PF13465 zf-H2C2_2: Zinc-finge 98.9 8E-10 1.7E-14 57.5 2.3 26 188-213 1-26 (26)
18 PHA00733 hypothetical protein 98.8 5.5E-09 1.2E-13 76.9 3.7 84 112-223 36-121 (128)
19 PF13465 zf-H2C2_2: Zinc-finge 98.6 2.1E-08 4.7E-13 52.0 1.4 25 241-266 1-25 (26)
20 PHA00732 hypothetical protein 98.5 4.7E-08 1E-12 65.3 2.5 47 161-225 1-48 (79)
21 PHA00616 hypothetical protein 98.5 5.1E-08 1.1E-12 56.4 1.2 33 227-260 1-34 (44)
22 KOG3993 Transcription factor ( 98.4 3.7E-08 8E-13 83.7 -0.0 82 160-253 266-383 (500)
23 PHA00616 hypothetical protein 98.3 4.5E-07 9.8E-12 52.5 1.6 39 161-211 1-39 (44)
24 PHA00732 hypothetical protein 98.1 4.7E-06 1E-10 55.7 3.5 48 201-251 1-49 (79)
25 PF00096 zf-C2H2: Zinc finger, 97.9 7.5E-06 1.6E-10 41.1 2.3 21 228-248 1-22 (23)
26 COG5189 SFP1 Putative transcri 97.9 3.7E-06 8E-11 69.2 0.6 50 198-247 346-419 (423)
27 PF05605 zf-Di19: Drought indu 97.9 1.6E-05 3.6E-10 49.2 3.3 46 202-250 3-53 (54)
28 PF13894 zf-C2H2_4: C2H2-type 97.8 2E-05 4.3E-10 39.8 2.3 23 228-250 1-24 (24)
29 PF13912 zf-C2H2_6: C2H2-type 97.8 1.5E-05 3.2E-10 41.7 1.5 24 227-250 1-25 (27)
30 PF12756 zf-C2H2_2: C2H2 type 97.7 2.7E-05 5.9E-10 54.8 3.0 76 163-254 1-78 (100)
31 PF00096 zf-C2H2: Zinc finger, 97.7 2E-05 4.3E-10 39.5 1.2 23 117-139 1-23 (23)
32 PF05605 zf-Di19: Drought indu 97.5 0.0002 4.3E-09 44.3 4.1 22 117-139 3-24 (54)
33 COG5189 SFP1 Putative transcri 97.2 0.00017 3.7E-09 59.6 1.6 26 112-137 345-372 (423)
34 PF13894 zf-C2H2_4: C2H2-type 97.2 0.00024 5.1E-09 35.7 1.5 23 117-139 1-23 (24)
35 PF13912 zf-C2H2_6: C2H2-type 97.1 0.0002 4.4E-09 37.3 1.1 25 116-140 1-25 (27)
36 PF12756 zf-C2H2_2: C2H2 type 97.1 0.00024 5.1E-09 49.9 1.8 23 201-223 50-72 (100)
37 KOG2231 Predicted E3 ubiquitin 96.9 0.0012 2.6E-08 60.9 4.5 106 125-259 123-240 (669)
38 smart00355 ZnF_C2H2 zinc finge 96.9 0.00072 1.6E-08 34.4 1.8 21 228-248 1-22 (26)
39 PRK04860 hypothetical protein; 96.8 0.00081 1.7E-08 51.4 2.6 39 227-269 119-157 (160)
40 PRK04860 hypothetical protein; 96.7 0.0012 2.6E-08 50.5 2.3 30 186-215 128-157 (160)
41 PF13909 zf-H2C2_5: C2H2-type 96.5 0.0018 3.8E-08 32.6 1.7 22 228-250 1-23 (24)
42 PF12874 zf-met: Zinc-finger o 96.4 0.0019 4.1E-08 32.8 1.5 21 228-248 1-22 (25)
43 KOG1146 Homeobox protein [Gene 96.4 0.0034 7.4E-08 61.5 4.0 96 87-194 435-539 (1406)
44 COG5048 FOG: Zn-finger [Genera 96.3 0.0066 1.4E-07 54.2 5.4 56 87-142 288-349 (467)
45 smart00355 ZnF_C2H2 zinc finge 96.3 0.0022 4.8E-08 32.5 1.4 23 117-139 1-23 (26)
46 PF09237 GAGA: GAGA factor; I 96.1 0.0049 1.1E-07 36.6 2.0 19 183-201 34-52 (54)
47 PF09237 GAGA: GAGA factor; I 96.0 0.0052 1.1E-07 36.5 2.0 26 225-250 22-48 (54)
48 PF12874 zf-met: Zinc-finger o 95.8 0.0039 8.5E-08 31.6 0.9 23 117-139 1-23 (25)
49 PF12171 zf-C2H2_jaz: Zinc-fin 95.7 0.0021 4.6E-08 33.4 -0.5 20 202-221 2-21 (27)
50 KOG2231 Predicted E3 ubiquitin 95.6 0.015 3.2E-07 54.0 4.4 72 183-262 124-213 (669)
51 PF13909 zf-H2C2_5: C2H2-type 95.4 0.013 2.9E-07 29.3 1.8 12 186-197 12-23 (24)
52 PF12171 zf-C2H2_jaz: Zinc-fin 95.4 0.0085 1.8E-07 31.0 1.1 22 227-248 1-23 (27)
53 PF13913 zf-C2HC_2: zinc-finge 94.6 0.023 5E-07 28.8 1.4 19 203-222 4-22 (25)
54 COG5236 Uncharacterized conser 93.7 0.03 6.5E-07 47.3 1.1 63 183-251 230-306 (493)
55 KOG1146 Homeobox protein [Gene 93.6 0.025 5.3E-07 55.9 0.5 66 183-248 446-540 (1406)
56 PF13913 zf-C2HC_2: zinc-finge 93.5 0.055 1.2E-06 27.4 1.6 20 228-248 3-23 (25)
57 PF06524 NOA36: NOA36 protein; 93.5 0.057 1.2E-06 43.8 2.5 15 112-126 138-152 (314)
58 TIGR00622 ssl1 transcription f 92.8 0.29 6.2E-06 34.8 4.8 46 203-248 57-103 (112)
59 smart00451 ZnF_U1 U1-like zinc 92.7 0.08 1.7E-06 29.1 1.6 22 227-248 3-25 (35)
60 KOG2893 Zn finger protein [Gen 92.5 0.061 1.3E-06 43.1 1.3 42 163-220 12-53 (341)
61 KOG2482 Predicted C2H2-type Zn 92.5 0.15 3.3E-06 43.1 3.6 47 202-248 280-356 (423)
62 smart00451 ZnF_U1 U1-like zinc 92.2 0.1 2.2E-06 28.6 1.6 22 201-222 3-24 (35)
63 KOG2893 Zn finger protein [Gen 91.7 0.056 1.2E-06 43.3 0.2 50 199-251 9-59 (341)
64 cd00350 rubredoxin_like Rubred 90.5 0.19 4E-06 27.4 1.5 10 254-263 16-25 (33)
65 KOG2186 Cell growth-regulating 90.4 0.19 4.1E-06 40.8 2.1 46 162-222 4-49 (276)
66 COG5048 FOG: Zn-finger [Genera 89.8 0.11 2.5E-06 46.2 0.5 122 115-266 288-457 (467)
67 KOG2482 Predicted C2H2-type Zn 89.2 0.99 2.2E-05 38.4 5.5 51 201-251 195-304 (423)
68 KOG4173 Alpha-SNAP protein [In 88.7 0.16 3.6E-06 39.7 0.5 79 160-251 78-171 (253)
69 KOG2186 Cell growth-regulating 87.9 0.31 6.7E-06 39.6 1.6 45 202-248 4-50 (276)
70 COG2888 Predicted Zn-ribbon RN 87.1 0.42 9E-06 29.5 1.5 8 162-169 28-35 (61)
71 PF09986 DUF2225: Uncharacteri 86.8 0.27 5.8E-06 39.8 0.8 41 199-239 3-61 (214)
72 COG4049 Uncharacterized protei 86.7 0.25 5.4E-06 30.0 0.4 28 195-222 11-38 (65)
73 KOG2071 mRNA cleavage and poly 85.2 0.54 1.2E-05 43.0 1.9 24 199-222 416-439 (579)
74 PRK09678 DNA-binding transcrip 84.2 0.46 9.9E-06 31.0 0.8 15 200-214 26-42 (72)
75 COG5236 Uncharacterized conser 84.2 1.2 2.5E-05 38.1 3.3 75 118-222 222-302 (493)
76 cd00729 rubredoxin_SM Rubredox 83.4 0.82 1.8E-05 25.0 1.4 9 255-263 18-26 (34)
77 PF09538 FYDLN_acid: Protein o 83.2 1 2.3E-05 32.0 2.3 32 87-129 8-39 (108)
78 PF02892 zf-BED: BED zinc fing 83.0 1.4 2.9E-05 25.7 2.4 25 226-250 15-44 (45)
79 PF15269 zf-C2H2_7: Zinc-finge 82.9 0.93 2E-05 26.2 1.6 24 225-248 16-42 (54)
80 COG4049 Uncharacterized protei 82.7 0.5 1.1E-05 28.7 0.5 31 110-140 11-41 (65)
81 COG1997 RPL43A Ribosomal prote 80.4 1.1 2.3E-05 30.2 1.4 31 200-238 34-65 (89)
82 TIGR00373 conserved hypothetic 80.4 0.76 1.7E-05 35.2 0.9 36 225-270 107-143 (158)
83 PHA00626 hypothetical protein 80.4 0.54 1.2E-05 28.6 0.0 15 200-214 22-36 (59)
84 PF04606 Ogr_Delta: Ogr/Delta- 80.0 0.76 1.7E-05 27.2 0.6 37 203-239 1-40 (47)
85 smart00659 RPOLCX RNA polymera 79.9 1.2 2.7E-05 26.0 1.4 11 202-212 3-13 (44)
86 PRK06266 transcription initiat 79.4 0.82 1.8E-05 35.8 0.8 36 225-270 115-151 (178)
87 COG1198 PriA Primosomal protei 79.2 1.9 4.1E-05 41.3 3.2 38 202-263 445-483 (730)
88 PRK00464 nrdR transcriptional 78.4 0.91 2E-05 34.5 0.7 43 89-134 1-46 (154)
89 PRK00464 nrdR transcriptional 77.8 0.95 2.1E-05 34.4 0.7 15 202-216 29-43 (154)
90 PF05443 ROS_MUCR: ROS/MUCR tr 77.7 1.4 3.1E-05 32.5 1.6 25 224-251 69-94 (132)
91 smart00531 TFIIE Transcription 77.3 1.3 2.8E-05 33.5 1.3 41 225-270 97-138 (147)
92 smart00614 ZnF_BED BED zinc fi 77.3 2.3 4.9E-05 25.5 2.1 20 229-248 20-45 (50)
93 COG1592 Rubrerythrin [Energy p 77.2 1.2 2.7E-05 34.2 1.1 12 197-208 145-156 (166)
94 KOG4173 Alpha-SNAP protein [In 76.9 0.79 1.7E-05 36.1 0.0 25 198-222 141-167 (253)
95 PRK14890 putative Zn-ribbon RN 76.7 1.3 2.7E-05 27.5 0.9 8 162-169 26-33 (59)
96 PF13717 zinc_ribbon_4: zinc-r 75.3 2.7 5.9E-05 23.3 1.9 10 203-212 4-13 (36)
97 COG1996 RPC10 DNA-directed RNA 74.5 1.8 3.8E-05 25.9 1.1 9 228-236 7-16 (49)
98 PF09723 Zn-ribbon_8: Zinc rib 74.4 1.6 3.5E-05 25.1 0.9 11 202-212 6-16 (42)
99 PF12013 DUF3505: Protein of u 74.3 10 0.00022 26.9 5.2 20 117-137 12-31 (109)
100 PF09538 FYDLN_acid: Protein o 74.1 2.4 5.1E-05 30.2 1.8 15 200-214 25-39 (108)
101 PF13719 zinc_ribbon_5: zinc-r 73.3 2.5 5.4E-05 23.6 1.4 12 200-211 24-35 (37)
102 smart00834 CxxC_CXXC_SSSS Puta 72.6 1.5 3.4E-05 24.8 0.5 8 162-169 6-13 (41)
103 KOG2785 C2H2-type Zn-finger pr 72.4 3.8 8.3E-05 35.6 3.0 23 161-195 3-25 (390)
104 smart00531 TFIIE Transcription 72.4 4 8.6E-05 30.8 2.9 37 198-237 96-134 (147)
105 TIGR02098 MJ0042_CXXC MJ0042 f 71.9 2.2 4.8E-05 23.8 1.1 11 201-211 25-35 (38)
106 TIGR02300 FYDLN_acid conserved 71.0 3.1 6.8E-05 30.2 1.9 35 87-132 8-42 (129)
107 smart00440 ZnF_C2C2 C2C2 Zinc 70.9 2.1 4.7E-05 24.3 0.8 34 202-237 1-39 (40)
108 TIGR02605 CxxC_CxxC_SSSS putat 68.7 2 4.4E-05 25.8 0.5 9 162-170 6-14 (52)
109 PF09986 DUF2225: Uncharacteri 68.6 2.3 5E-05 34.4 0.9 44 86-129 3-61 (214)
110 KOG2785 C2H2-type Zn-finger pr 66.4 13 0.00027 32.5 4.9 31 226-256 216-250 (390)
111 PF12013 DUF3505: Protein of u 66.3 9.5 0.00021 27.0 3.6 24 228-251 81-109 (109)
112 TIGR00373 conserved hypothetic 64.7 6.7 0.00015 30.0 2.7 33 197-236 105-138 (158)
113 PRK00398 rpoP DNA-directed RNA 64.6 3.6 7.7E-05 24.1 1.0 12 201-212 21-32 (46)
114 TIGR00622 ssl1 transcription f 64.6 7.1 0.00015 27.9 2.6 101 89-224 2-104 (112)
115 PF12907 zf-met2: Zinc-binding 62.1 4.6 9.9E-05 23.0 1.0 31 228-258 2-36 (40)
116 PF03604 DNA_RNApol_7kD: DNA d 61.2 6.7 0.00014 21.1 1.5 10 160-169 16-25 (32)
117 COG4957 Predicted transcriptio 61.1 5.8 0.00013 29.1 1.7 24 225-251 74-98 (148)
118 smart00734 ZnF_Rad18 Rad18-lik 60.7 6.3 0.00014 20.0 1.3 19 203-222 3-21 (26)
119 PRK06266 transcription initiat 59.0 8.2 0.00018 30.2 2.3 34 198-238 114-148 (178)
120 PF04959 ARS2: Arsenite-resist 58.7 8.2 0.00018 31.1 2.3 28 224-251 74-102 (214)
121 KOG3408 U1-like Zn-finger-cont 58.3 5.7 0.00012 28.5 1.2 26 224-249 54-80 (129)
122 KOG2272 Focal adhesion protein 58.3 24 0.00051 29.0 4.8 74 195-276 215-301 (332)
123 PF14353 CpXC: CpXC protein 57.9 1.7 3.7E-05 31.9 -1.6 51 89-139 2-61 (128)
124 KOG2593 Transcription initiati 57.1 4 8.7E-05 36.1 0.3 40 111-170 123-162 (436)
125 KOG1701 Focal adhesion adaptor 55.9 1.2 2.6E-05 39.1 -3.0 42 89-130 275-316 (468)
126 PF07754 DUF1610: Domain of un 55.7 5.1 0.00011 20.0 0.4 9 255-263 16-24 (24)
127 PF13451 zf-trcl: Probable zin 54.8 9 0.00019 22.9 1.5 15 200-214 3-17 (49)
128 PF05290 Baculo_IE-1: Baculovi 54.7 4.2 9.1E-05 29.8 0.1 24 187-215 112-135 (140)
129 PF12760 Zn_Tnp_IS1595: Transp 54.6 20 0.00043 20.9 3.0 26 202-234 19-45 (46)
130 PRK04023 DNA polymerase II lar 54.1 16 0.00035 36.2 3.8 9 256-264 664-672 (1121)
131 COG3091 SprT Zn-dependent meta 53.7 6.6 0.00014 29.6 0.9 31 200-234 116-148 (156)
132 KOG4167 Predicted DNA-binding 53.0 3.6 7.8E-05 38.8 -0.6 26 114-139 790-815 (907)
133 KOG4167 Predicted DNA-binding 52.8 4.5 9.8E-05 38.2 -0.0 34 81-114 785-818 (907)
134 KOG2593 Transcription initiati 52.7 15 0.00034 32.6 3.2 35 199-234 126-161 (436)
135 PRK04023 DNA polymerase II lar 50.8 17 0.00036 36.1 3.3 9 117-125 627-635 (1121)
136 PF01780 Ribosomal_L37ae: Ribo 50.0 9.3 0.0002 26.1 1.1 30 200-237 34-64 (90)
137 PRK03976 rpl37ae 50S ribosomal 50.0 8 0.00017 26.4 0.8 10 227-236 54-64 (90)
138 PF04959 ARS2: Arsenite-resist 49.1 8.5 0.00018 31.0 1.0 24 199-222 75-98 (214)
139 PF10571 UPF0547: Uncharacteri 49.0 9.8 0.00021 19.4 0.9 10 203-212 16-25 (26)
140 PF03811 Zn_Tnp_IS1: InsA N-te 48.2 3.3 7.2E-05 23.0 -1.0 19 189-207 17-35 (36)
141 KOG2807 RNA polymerase II tran 47.6 34 0.00074 29.3 4.3 24 225-248 343-367 (378)
142 COG5152 Uncharacterized conser 47.5 7.3 0.00016 30.6 0.4 16 199-214 194-209 (259)
143 PRK14714 DNA polymerase II lar 47.3 23 0.0005 36.1 3.7 10 227-236 692-702 (1337)
144 PTZ00255 60S ribosomal protein 46.8 12 0.00026 25.6 1.3 30 200-237 35-65 (90)
145 PF01363 FYVE: FYVE zinc finge 46.7 11 0.00024 24.1 1.1 13 200-212 24-36 (69)
146 PF08790 zf-LYAR: LYAR-type C2 46.0 8.3 0.00018 20.0 0.3 18 203-221 2-19 (28)
147 PF08274 PhnA_Zn_Ribbon: PhnA 45.5 14 0.0003 19.6 1.1 9 204-212 5-13 (30)
148 TIGR00280 L37a ribosomal prote 45.2 12 0.00026 25.6 1.1 30 200-237 34-64 (91)
149 PRK14873 primosome assembly pr 43.8 12 0.00026 35.8 1.3 8 201-208 410-417 (665)
150 smart00504 Ubox Modified RING 43.7 32 0.00069 21.2 2.9 44 202-266 2-46 (63)
151 TIGR00244 transcriptional regu 42.5 13 0.00029 27.9 1.1 44 90-133 2-45 (147)
152 COG1198 PriA Primosomal protei 41.1 24 0.00051 34.2 2.8 11 160-170 474-484 (730)
153 COG1327 Predicted transcriptio 40.7 15 0.00032 27.7 1.1 42 90-131 2-43 (156)
154 PRK00432 30S ribosomal protein 40.4 17 0.00037 21.8 1.1 12 200-211 36-47 (50)
155 PF04641 Rtf2: Rtf2 RING-finge 40.2 35 0.00076 28.5 3.4 53 198-269 110-164 (260)
156 COG3357 Predicted transcriptio 40.2 15 0.00032 25.0 0.9 7 204-210 61-67 (97)
157 PF01096 TFIIS_C: Transcriptio 40.1 6.5 0.00014 22.2 -0.7 11 116-126 28-38 (39)
158 KOG1813 Predicted E3 ubiquitin 40.0 10 0.00022 31.9 0.1 15 200-214 240-254 (313)
159 PF14446 Prok-RING_1: Prokaryo 39.1 15 0.00033 22.4 0.8 15 256-270 6-20 (54)
160 smart00154 ZnF_AN1 AN1-like Zi 39.0 18 0.00039 20.4 1.0 14 201-214 12-25 (39)
161 COG1998 RPS31 Ribosomal protei 38.0 16 0.00034 21.8 0.7 10 201-210 37-46 (51)
162 KOG4124 Putative transcription 37.9 6.9 0.00015 33.6 -1.1 48 199-246 347-418 (442)
163 COG2331 Uncharacterized protei 37.8 17 0.00038 23.8 0.9 11 202-212 13-23 (82)
164 cd00065 FYVE FYVE domain; Zinc 37.3 21 0.00045 21.6 1.3 12 201-212 18-29 (57)
165 PHA02998 RNA polymerase subuni 37.1 16 0.00034 28.3 0.7 34 202-237 144-182 (195)
166 PRK05978 hypothetical protein; 36.8 14 0.00031 27.9 0.5 32 162-214 34-65 (148)
167 COG0068 HypF Hydrogenase matur 36.5 18 0.00039 34.4 1.2 46 90-135 125-170 (750)
168 COG1779 C4-type Zn-finger prot 36.2 13 0.00027 29.4 0.1 12 228-239 44-56 (201)
169 COG5151 SSL1 RNA polymerase II 35.9 49 0.0011 28.2 3.5 46 203-248 364-410 (421)
170 PF01286 XPA_N: XPA protein N- 35.2 17 0.00037 19.9 0.5 9 231-239 8-16 (34)
171 COG4888 Uncharacterized Zn rib 35.0 15 0.00032 25.5 0.3 10 228-237 47-57 (104)
172 KOG3408 U1-like Zn-finger-cont 34.7 18 0.00039 26.1 0.7 25 199-223 55-79 (129)
173 PF10013 DUF2256: Uncharacteri 34.7 22 0.00048 20.4 0.9 16 118-133 10-25 (42)
174 COG1571 Predicted DNA-binding 34.5 29 0.00062 31.0 2.1 18 198-215 364-381 (421)
175 PF09416 UPF1_Zn_bind: RNA hel 34.4 36 0.00078 25.8 2.3 26 238-263 32-68 (152)
176 KOG4377 Zn-finger protein [Gen 34.4 35 0.00076 30.2 2.5 22 228-249 402-426 (480)
177 PRK12380 hydrogenase nickel in 33.9 24 0.00051 25.3 1.2 12 227-238 70-82 (113)
178 PF09963 DUF2197: Uncharacteri 33.8 24 0.00051 21.8 1.0 10 203-212 4-13 (56)
179 PF01927 Mut7-C: Mut7-C RNAse 33.5 34 0.00074 25.7 2.1 48 88-135 91-143 (147)
180 PLN02294 cytochrome c oxidase 33.5 30 0.00064 26.7 1.7 12 254-265 140-151 (174)
181 smart00064 FYVE Protein presen 33.3 26 0.00057 22.2 1.3 14 200-213 25-38 (68)
182 COG4530 Uncharacterized protei 33.3 35 0.00077 24.1 1.9 28 89-127 10-37 (129)
183 smart00731 SprT SprT homologue 33.1 25 0.00055 26.4 1.4 9 202-210 113-121 (146)
184 PRK01343 zinc-binding protein; 32.5 39 0.00085 20.9 1.8 11 202-212 10-20 (57)
185 PF07800 DUF1644: Protein of u 32.3 2.3E+02 0.0049 21.7 6.2 53 201-256 80-138 (162)
186 COG1773 Rubredoxin [Energy pro 32.0 29 0.00063 21.3 1.2 14 255-268 3-16 (55)
187 KOG3507 DNA-directed RNA polym 31.5 18 0.0004 22.3 0.3 16 199-214 35-50 (62)
188 PF10263 SprT-like: SprT-like 31.2 21 0.00045 27.0 0.6 9 202-210 124-132 (157)
189 PRK04351 hypothetical protein; 31.1 28 0.0006 26.4 1.3 12 254-265 131-142 (149)
190 KOG2807 RNA polymerase II tran 30.5 1.2E+02 0.0026 26.1 4.9 35 87-135 275-309 (378)
191 PF02176 zf-TRAF: TRAF-type zi 30.2 36 0.00077 20.8 1.5 36 201-237 9-53 (60)
192 PF05191 ADK_lid: Adenylate ki 30.0 36 0.00079 18.8 1.3 13 117-129 2-14 (36)
193 TIGR00100 hypA hydrogenase nic 30.0 28 0.00061 25.0 1.1 25 227-264 70-95 (115)
194 KOG4124 Putative transcription 29.9 24 0.00051 30.5 0.8 55 198-252 175-238 (442)
195 PRK03824 hypA hydrogenase nick 29.7 27 0.00059 25.9 1.0 39 87-125 69-116 (135)
196 TIGR00595 priA primosomal prot 29.4 46 0.001 30.8 2.6 9 161-169 253-261 (505)
197 PF15135 UPF0515: Uncharacteri 29.3 53 0.0012 27.0 2.6 14 201-214 155-168 (278)
198 KOG0717 Molecular chaperone (D 29.1 35 0.00077 30.8 1.7 22 228-249 293-315 (508)
199 COG1656 Uncharacterized conser 29.0 71 0.0015 24.6 3.1 22 224-245 127-149 (165)
200 PF04810 zf-Sec23_Sec24: Sec23 28.6 33 0.00072 19.3 1.0 32 88-125 2-33 (40)
201 PF09845 DUF2072: Zn-ribbon co 28.6 27 0.0006 25.6 0.8 15 201-215 1-15 (131)
202 PF01428 zf-AN1: AN1-like Zinc 28.3 20 0.00043 20.6 0.0 15 200-214 12-26 (43)
203 PF07282 OrfB_Zn_ribbon: Putat 27.5 41 0.00089 21.3 1.5 14 199-212 44-57 (69)
204 PRK00564 hypA hydrogenase nick 27.3 35 0.00076 24.6 1.2 12 227-238 71-83 (117)
205 COG5112 UFD2 U1-like Zn-finger 27.2 26 0.00056 24.6 0.5 23 226-248 54-77 (126)
206 COG3677 Transposase and inacti 27.2 18 0.0004 26.6 -0.3 16 199-214 51-66 (129)
207 PF08209 Sgf11: Sgf11 (transcr 27.1 48 0.001 18.0 1.4 21 201-222 4-24 (33)
208 TIGR01206 lysW lysine biosynth 26.7 41 0.00088 20.6 1.2 15 256-270 3-17 (54)
209 cd00924 Cyt_c_Oxidase_Vb Cytoc 26.5 32 0.0007 23.9 0.8 18 194-212 73-90 (97)
210 smart00661 RPOL9 RNA polymeras 25.8 40 0.00087 19.9 1.1 11 201-211 20-30 (52)
211 KOG1994 Predicted RNA binding 25.7 43 0.00093 27.1 1.5 22 225-246 237-259 (268)
212 KOG0978 E3 ubiquitin ligase in 25.6 50 0.0011 31.7 2.1 21 200-220 677-697 (698)
213 COG5151 SSL1 RNA polymerase II 25.3 26 0.00056 29.8 0.2 103 87-224 307-411 (421)
214 KOG1701 Focal adhesion adaptor 25.1 21 0.00045 31.7 -0.4 18 201-218 302-319 (468)
215 COG1571 Predicted DNA-binding 24.9 44 0.00096 29.9 1.6 31 90-131 352-382 (421)
216 PF04423 Rad50_zn_hook: Rad50 24.8 21 0.00045 21.6 -0.3 14 257-270 22-35 (54)
217 PF01155 HypA: Hydrogenase exp 24.0 35 0.00076 24.4 0.7 12 228-239 71-83 (113)
218 KOG2071 mRNA cleavage and poly 23.9 45 0.00099 31.0 1.5 25 225-249 416-441 (579)
219 COG4640 Predicted membrane pro 23.9 55 0.0012 28.9 1.9 21 199-219 13-33 (465)
220 KOG3362 Predicted BBOX Zn-fing 23.6 28 0.0006 26.0 0.1 22 117-138 130-151 (156)
221 PF03884 DUF329: Domain of unk 23.6 48 0.001 20.6 1.1 11 228-238 3-14 (57)
222 PRK12722 transcriptional activ 23.1 58 0.0013 25.7 1.8 48 207-263 113-162 (187)
223 PF11494 Ta0938: Ta0938; Inte 22.5 44 0.00095 23.0 0.9 35 200-239 13-50 (105)
224 PF13821 DUF4187: Domain of un 22.4 58 0.0013 20.0 1.3 16 227-242 27-43 (55)
225 PF14311 DUF4379: Domain of un 22.3 64 0.0014 19.5 1.5 11 202-212 29-39 (55)
226 KOG4317 Predicted Zn-finger pr 22.0 38 0.00082 28.9 0.6 19 89-107 20-38 (383)
227 PF03145 Sina: Seven in absent 21.9 89 0.0019 24.7 2.7 49 202-252 15-73 (198)
228 PF06397 Desulfoferrod_N: Desu 21.8 30 0.00064 19.2 -0.0 12 255-266 6-17 (36)
229 PRK12860 transcriptional activ 21.7 63 0.0014 25.5 1.7 47 207-262 113-161 (189)
230 PRK03681 hypA hydrogenase nick 21.6 39 0.00085 24.2 0.5 9 256-264 88-96 (114)
231 PF06170 DUF983: Protein of un 21.6 52 0.0011 22.3 1.1 17 256-272 9-25 (86)
232 PF15227 zf-C3HC4_4: zinc fing 21.5 41 0.00088 19.2 0.5 42 204-261 1-42 (42)
233 PF11672 DUF3268: Protein of u 21.5 69 0.0015 22.5 1.7 39 87-125 1-40 (102)
234 KOG3214 Uncharacterized Zn rib 20.7 54 0.0012 22.8 1.0 46 80-129 15-60 (109)
235 PF04780 DUF629: Protein of un 20.6 67 0.0015 29.3 1.9 28 226-253 56-84 (466)
236 PF05129 Elf1: Transcription e 20.6 26 0.00055 23.5 -0.6 44 82-129 16-59 (81)
237 PF13824 zf-Mss51: Zinc-finger 20.5 73 0.0016 19.6 1.5 15 113-127 11-25 (55)
238 PF13878 zf-C2H2_3: zinc-finge 20.3 1.5E+02 0.0032 16.8 2.6 26 162-197 14-39 (41)
239 KOG0320 Predicted E3 ubiquitin 20.1 57 0.0012 25.4 1.2 12 202-213 132-143 (187)
No 1
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.97 E-value=8.2e-31 Score=208.38 Aligned_cols=135 Identities=28% Similarity=0.479 Sum_probs=122.6
Q ss_pred CCCCCCCcccccccccccccCCCCchhhccC---CCccccccccccccccchHHHhHhhhCCCCCCCCccccccccccCC
Q 046329 83 GSTSNPTPNDIVNKLVEGQYWIPSPEQILVG---PTQFSCPVCNKTFNRYNNMQMHMWGHGSQYRKGPESLRGTKAVSSM 159 (280)
Q Consensus 83 ~~~~~~~~C~~c~~~~~~~~~l~~h~~~h~~---~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~~~~ 159 (280)
......|.|..|++.+.+...|.+|.++|.. .+.+.|.+|+|.|.....|.+|+++|+
T Consensus 125 ~~~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~------------------- 185 (279)
T KOG2462|consen 125 AAKHPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT------------------- 185 (279)
T ss_pred cccCCceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC-------------------
Confidence 3355678999999999999999999998865 677899999999999999999999994
Q ss_pred CccccCCCcCCccCCCCCCCCCCCCChHHHHHHHHHhhCCCCeeCCCCCcccccchhhhHhhhcc--Ccceee-ccCccc
Q 046329 160 LRLPCYCCAEGCKNNIGHPRSRPLKDFRTLQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEKNC--GKLWFC-ICGSDF 236 (280)
Q Consensus 160 ~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~~~h~~ekp~~C~~C~k~F~~~~~L~~H~~~~--~k~~~C-~C~k~F 236 (280)
.+++|.+|||. |...+.|+.|+|+|+|||||.|..|+|+|..+++|+.||.|| .|.|+| .|+|+|
T Consensus 186 l~c~C~iCGKa------------FSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsF 253 (279)
T KOG2462|consen 186 LPCECGICGKA------------FSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSF 253 (279)
T ss_pred CCccccccccc------------ccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHH
Confidence 57899999987 999999999999999999999999999999999999999986 599999 999999
Q ss_pred CChhhHHHHHHH
Q 046329 237 KHKRSLKDHVRS 248 (280)
Q Consensus 237 ~~~~~L~~H~r~ 248 (280)
..++.|.+|...
T Consensus 254 sl~SyLnKH~ES 265 (279)
T KOG2462|consen 254 ALKSYLNKHSES 265 (279)
T ss_pred HHHHHHHHhhhh
Confidence 999999999876
No 2
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.95 E-value=2.3e-28 Score=194.45 Aligned_cols=125 Identities=22% Similarity=0.455 Sum_probs=115.3
Q ss_pred CCCccccccccccccccchHHHhHhhhCCCCCCCCccccccccccCCCccccCCCcCCccCCCCCCCCCCCCChHHHHHH
Q 046329 113 GPTQFSCPVCNKTFNRYNNMQMHMWGHGSQYRKGPESLRGTKAVSSMLRLPCYCCAEGCKNNIGHPRSRPLKDFRTLQTH 192 (280)
Q Consensus 113 ~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H 192 (280)
....|+|+.|++.+.+..+|.+|.++|..- ...+.+.|..|++. |.....|+.|
T Consensus 127 ~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~--------------~s~ka~~C~~C~K~------------YvSmpALkMH 180 (279)
T KOG2462|consen 127 KHPRYKCPECGKSYSTSSNLSRHKQTHRSL--------------DSKKAFSCKYCGKV------------YVSMPALKMH 180 (279)
T ss_pred cCCceeccccccccccccccchhhcccccc--------------cccccccCCCCCce------------eeehHHHhhH
Confidence 456699999999999999999999999422 44677999999988 9999999999
Q ss_pred HHHhhCCCCeeCCCCCcccccchhhhHhhh--ccCcceee-ccCcccCChhhHHHHHHHhCCCCCCccccCCCcccc
Q 046329 193 YKRKHGAKPFGCRKCGKPFAVRGDWRTHEK--NCGKLWFC-ICGSDFKHKRSLKDHVRSFGDGHAPHTVEFGREVEE 266 (280)
Q Consensus 193 ~~~h~~ekp~~C~~C~k~F~~~~~L~~H~~--~~~k~~~C-~C~k~F~~~~~L~~H~r~~h~~~~~~~C~~C~~~~~ 266 (280)
+|+|+ -+++|.+|||.|.+.+.|+.|+| ||||||.| .|+|.|..+++|+.||++ |.+.|+|+|..|+|.|.
T Consensus 181 irTH~--l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQT-HS~~K~~qC~~C~KsFs 254 (279)
T KOG2462|consen 181 IRTHT--LPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQT-HSDVKKHQCPRCGKSFA 254 (279)
T ss_pred hhccC--CCcccccccccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHh-hcCCccccCcchhhHHH
Confidence 99999 78999999999999999999999 57999999 999999999999999999 89999999999999875
No 3
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.88 E-value=1.7e-23 Score=187.63 Aligned_cols=85 Identities=27% Similarity=0.580 Sum_probs=72.8
Q ss_pred CCChHHHHHHHHHhhCCCCeeCCCCCcccccchhhhHhhhccC------cceee----ccCcccCChhhHHHHHHHhCCC
Q 046329 183 LKDFRTLQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEKNCG------KLWFC----ICGSDFKHKRSLKDHVRSFGDG 252 (280)
Q Consensus 183 f~~~~~L~~H~~~h~~ekp~~C~~C~k~F~~~~~L~~H~~~~~------k~~~C----~C~k~F~~~~~L~~H~r~~h~~ 252 (280)
+...+.|+.|+|+|+|||||+|.+||++|+++.+|+.|+.+|. -.|.| +|-+.|.+.-.|.+|+|+|-.+
T Consensus 615 lSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~V~lpQhIriH~~~ 694 (958)
T KOG1074|consen 615 LSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNAVTLPQHIRIHLGG 694 (958)
T ss_pred ccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhcccccccccccceEEeecCC
Confidence 8889999999999999999999999999999999999998763 34778 5999999999999999995423
Q ss_pred CCC------------ccccCCCccccc
Q 046329 253 HAP------------HTVEFGREVEED 267 (280)
Q Consensus 253 ~~~------------~~C~~C~~~~~~ 267 (280)
..+ -+|..|.+.|.+
T Consensus 695 ~~s~g~~a~e~~~~adq~~~~qk~~~~ 721 (958)
T KOG1074|consen 695 QISNGGTAAEGILAADQCSSCQKTFSD 721 (958)
T ss_pred CCCCCcccccccchhcccchhhhcccc
Confidence 332 479999987644
No 4
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.82 E-value=1.5e-20 Score=142.84 Aligned_cols=113 Identities=27% Similarity=0.533 Sum_probs=102.0
Q ss_pred cCCCccccccccccccccchHHHhHhhhCCCCCCCCccccccccccCCCccccCCCcCCccCCCCCCCCCCCCChHHHHH
Q 046329 112 VGPTQFSCPVCNKTFNRYNNMQMHMWGHGSQYRKGPESLRGTKAVSSMLRLPCYCCAEGCKNNIGHPRSRPLKDFRTLQT 191 (280)
Q Consensus 112 ~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~ 191 (280)
.+...|.|.+|+|+|.....|.+|++.| ...+.|-|..||++ |....+|++
T Consensus 113 sd~d~ftCrvCgK~F~lQRmlnrh~kch-----------------~~vkr~lct~cgkg------------fndtfdlkr 163 (267)
T KOG3576|consen 113 SDQDSFTCRVCGKKFGLQRMLNRHLKCH-----------------SDVKRHLCTFCGKG------------FNDTFDLKR 163 (267)
T ss_pred CCCCeeeeehhhhhhhHHHHHHHHhhhc-----------------cHHHHHHHhhccCc------------ccchhhhhh
Confidence 3456799999999999999999999999 55578999999999 888999999
Q ss_pred HHHHhhCCCCeeCCCCCcccccchhhhHhhh-c------------cCcceee-ccCcccCChhhHHHHHHHhCCCC
Q 046329 192 HYKRKHGAKPFGCRKCGKPFAVRGDWRTHEK-N------------CGKLWFC-ICGSDFKHKRSLKDHVRSFGDGH 253 (280)
Q Consensus 192 H~~~h~~ekp~~C~~C~k~F~~~~~L~~H~~-~------------~~k~~~C-~C~k~F~~~~~L~~H~r~~h~~~ 253 (280)
|+|+|+|.+||+|..|+|+|++.-.|..|++ + ..|.|+| .||.+-.....+..|++.||...
T Consensus 164 h~rthtgvrpykc~~c~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~S 239 (267)
T KOG3576|consen 164 HTRTHTGVRPYKCSLCEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFS 239 (267)
T ss_pred hhccccCccccchhhhhHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCC
Confidence 9999999999999999999999999999987 2 2478999 99999999999999999977653
No 5
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.81 E-value=6.2e-21 Score=156.15 Aligned_cols=164 Identities=16% Similarity=0.307 Sum_probs=115.1
Q ss_pred cccccccccccCCCCchhhccCCCccccccccccccccchHHHhHhhhCCCCCCCCccccccc-----------cccCCC
Q 046329 92 DIVNKLVEGQYWIPSPEQILVGPTQFSCPVCNKTFNRYNNMQMHMWGHGSQYRKGPESLRGTK-----------AVSSML 160 (280)
Q Consensus 92 ~~c~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~-----------~~~~~~ 160 (280)
..|-+.+.+++.|..|++.|++++...|+.||..|.++..|..|++..+.-..+.-......| ......
T Consensus 183 ~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn 262 (467)
T KOG3608|consen 183 AMCTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVN 262 (467)
T ss_pred hhhhhhhccHHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhh
Confidence 456666666666666666666666666666666666666666665543211000000000000 001123
Q ss_pred ccccCCCcCCccCCCCCCCCCCCCChHHHHHHHH-HhhCCCCeeCCCCCcccccchhhhHhhhccCc-ceee-c--cCcc
Q 046329 161 RLPCYCCAEGCKNNIGHPRSRPLKDFRTLQTHYK-RKHGAKPFGCRKCGKPFAVRGDWRTHEKNCGK-LWFC-I--CGSD 235 (280)
Q Consensus 161 ~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~~-~h~~ekp~~C~~C~k~F~~~~~L~~H~~~~~k-~~~C-~--C~k~ 235 (280)
-|+|+.|..+ ....++|.+|++ .|+..|||+|+.|++.|.+.+.|.+|..+|.+ .|.| . |..+
T Consensus 263 ~ykCplCdmt------------c~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS~~~y~C~h~~C~~s 330 (467)
T KOG3608|consen 263 CYKCPLCDMT------------CSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHSKTVYQCEHPDCHYS 330 (467)
T ss_pred cccccccccC------------CCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhccccceecCCCCCcHH
Confidence 4788888877 666789999999 48889999999999999999999999998864 5999 4 9999
Q ss_pred cCChhhHHHHHHHhCCCC--CCccccCCCccccc
Q 046329 236 FKHKRSLKDHVRSFGDGH--APHTVEFGREVEED 267 (280)
Q Consensus 236 F~~~~~L~~H~r~~h~~~--~~~~C~~C~~~~~~ 267 (280)
|.....|++|++.+|.|. .+|.|-.|++.|-.
T Consensus 331 ~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~ 364 (467)
T KOG3608|consen 331 VRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTS 364 (467)
T ss_pred HHHHHHHHHHHHHhccCCCCCceeeecchhhhcc
Confidence 999999999999988765 47999999997754
No 6
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.75 E-value=3e-19 Score=160.74 Aligned_cols=60 Identities=18% Similarity=0.386 Sum_probs=55.0
Q ss_pred CCCCCCCCCCcccccccccccccCCCCchhhccCCCccccccccccccccchHHHhHhhh
Q 046329 80 EAAGSTSNPTPNDIVNKLVEGQYWIPSPEQILVGPTQFSCPVCNKTFNRYNNMQMHMWGH 139 (280)
Q Consensus 80 ~~~~~~~~~~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h 139 (280)
........+..|-+|-++++-...|+.|+++|+|++||+|.+||++|.++.+|+.||.+|
T Consensus 597 ~~~~~~TdPNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vH 656 (958)
T KOG1074|consen 597 NSENKRTDPNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVH 656 (958)
T ss_pred ccccccCCccceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhccccc
Confidence 334445567899999999999999999999999999999999999999999999999999
No 7
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.72 E-value=1.7e-18 Score=141.92 Aligned_cols=126 Identities=21% Similarity=0.367 Sum_probs=106.7
Q ss_pred ccccc--ccccccccchHHHhHhhhCCCCCCCCccccccccccCCCccccCCCcCCccCCCCCCCCCCCCChHHHHHHHH
Q 046329 117 FSCPV--CNKTFNRYNNMQMHMWGHGSQYRKGPESLRGTKAVSSMLRLPCYCCAEGCKNNIGHPRSRPLKDFRTLQTHYK 194 (280)
Q Consensus 117 ~~C~~--C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~~ 194 (280)
+.|.. |.+.|..+..|.+|++.| ++++...|+.||.. |.+...|-.|.+
T Consensus 178 ~~C~W~~Ct~~~~~k~~LreH~r~H-----------------s~eKvvACp~Cg~~------------F~~~tkl~DH~r 228 (467)
T KOG3608|consen 178 TMCNWAMCTKHMGNKYRLREHIRTH-----------------SNEKVVACPHCGEL------------FRTKTKLFDHLR 228 (467)
T ss_pred eeccchhhhhhhccHHHHHHHHHhc-----------------CCCeEEecchHHHH------------hccccHHHHHHH
Confidence 55765 999999999999999999 44577889999977 888888888887
Q ss_pred Hhh--CCCCeeCCCCCcccccchhhhHhhhccCcceee-ccCcccCChhhHHHHHHHhCCCCCCccccCCCccccccccC
Q 046329 195 RKH--GAKPFGCRKCGKPFAVRGDWRTHEKNCGKLWFC-ICGSDFKHKRSLKDHVRSFGDGHAPHTVEFGREVEEDEDED 271 (280)
Q Consensus 195 ~h~--~ekp~~C~~C~k~F~~~~~L~~H~~~~~k~~~C-~C~k~F~~~~~L~~H~r~~h~~~~~~~C~~C~~~~~~~~~~ 271 (280)
..+ ...+|.|..|.|.|.+...|..|++.|-.-|+| .|+.+....+.|.+|+|..|...|||+|+.|+..+-.+.|.
T Consensus 229 Rqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL 308 (467)
T KOG3608|consen 229 RQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNCYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDL 308 (467)
T ss_pred hhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhcccccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHH
Confidence 544 456899999999999998999999888888999 89999999999999999888889999999998877665543
No 8
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.59 E-value=1.2e-16 Score=142.04 Aligned_cols=121 Identities=21% Similarity=0.354 Sum_probs=99.1
Q ss_pred CCCCcccccccccccccCCCCchhhcc--CCCccccccccccccccchHHHhHhhhCCCCCCCCccccccccccCCCccc
Q 046329 86 SNPTPNDIVNKLVEGQYWIPSPEQILV--GPTQFSCPVCNKTFNRYNNMQMHMWGHGSQYRKGPESLRGTKAVSSMLRLP 163 (280)
Q Consensus 86 ~~~~~C~~c~~~~~~~~~l~~h~~~h~--~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~~~~~~~~ 163 (280)
.....|++|...+.....|+.|++--+ .+..|.|..|..+|.....|.+||..|...... ....-.....+.|+
T Consensus 208 sqlltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dq----a~sltqsa~lRKFK 283 (1007)
T KOG3623|consen 208 SQLLTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQ----AISLTQSALLRKFK 283 (1007)
T ss_pred hhhhcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcc----cccccchhhhcccc
Confidence 345789999999999999999976432 355689999999999999999999999422110 01111123447799
Q ss_pred cCCCcCCccCCCCCCCCCCCCChHHHHHHHHHhhCCCCeeCCCCCcccccchhhhHhhh
Q 046329 164 CYCCAEGCKNNIGHPRSRPLKDFRTLQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEK 222 (280)
Q Consensus 164 C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~~~h~~ekp~~C~~C~k~F~~~~~L~~H~~ 222 (280)
|.+|||. |+.+..|+.|+|+|+|||||.|+.|+|+|++.+.+..||.
T Consensus 284 CtECgKA------------FKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmS 330 (1007)
T KOG3623|consen 284 CTECGKA------------FKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMS 330 (1007)
T ss_pred ccccchh------------hhhHHHHHhhheeecCCCCcCCcccccccccCCccccccc
Confidence 9999988 9999999999999999999999999999999999999985
No 9
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.57 E-value=4.4e-16 Score=118.62 Aligned_cols=118 Identities=21% Similarity=0.337 Sum_probs=103.7
Q ss_pred CCCCCCCCCCCCcccccccccccccCCCCchhhccCCCccccccccccccccchHHHhHhhhCCCCCCCCcccccccccc
Q 046329 78 TTEAAGSTSNPTPNDIVNKLVEGQYWIPSPEQILVGPTQFSCPVCNKTFNRYNNMQMHMWGHGSQYRKGPESLRGTKAVS 157 (280)
Q Consensus 78 ~~~~~~~~~~~~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~~ 157 (280)
......+....+.|.+|++.|..+..|.+|++-|..-+.|-|..||+.|+....|++|+++| .
T Consensus 107 ~t~gsssd~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rth-----------------t 169 (267)
T KOG3576|consen 107 STIGSSSDQDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTH-----------------T 169 (267)
T ss_pred ccccCCCCCCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccc-----------------c
Confidence 33444555678999999999999999999999999999999999999999999999999999 4
Q ss_pred CCCccccCCCcCCccCCCCCCCCCCCCChHHHHHHHHHhhC-----------CCCeeCCCCCcccccchhhhHhhhcc
Q 046329 158 SMLRLPCYCCAEGCKNNIGHPRSRPLKDFRTLQTHYKRKHG-----------AKPFGCRKCGKPFAVRGDWRTHEKNC 224 (280)
Q Consensus 158 ~~~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~~~h~~-----------ekp~~C~~C~k~F~~~~~L~~H~~~~ 224 (280)
+.++|+|..|++. |...-.|..|.+.-+| .|.|.|..||.+-.....+..|++.+
T Consensus 170 gvrpykc~~c~ka------------ftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~ 235 (267)
T KOG3576|consen 170 GVRPYKCSLCEKA------------FTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLH 235 (267)
T ss_pred CccccchhhhhHH------------HHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhc
Confidence 5599999999988 8888999999885443 57799999999999999999998854
No 10
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.54 E-value=1.2e-15 Score=135.83 Aligned_cols=78 Identities=23% Similarity=0.497 Sum_probs=66.6
Q ss_pred CCCccccCCCcCCccCCCCCCCCCCCCChHHHHHHHHHhhCCCCeeCCCCCcccccchhhhHhhh--ccCcceee-ccCc
Q 046329 158 SMLRLPCYCCAEGCKNNIGHPRSRPLKDFRTLQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEK--NCGKLWFC-ICGS 234 (280)
Q Consensus 158 ~~~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~~~h~~ekp~~C~~C~k~F~~~~~L~~H~~--~~~k~~~C-~C~k 234 (280)
....|.|..|+|. |...+.|.+|.--|+|.+||+|.+|.|+|.++.+|..|+| .|+|||+| .|+|
T Consensus 891 e~gmyaCDqCDK~------------FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQCdKClK 958 (1007)
T KOG3623|consen 891 EDGMYACDQCDKA------------FQKQSSLARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQCDKCLK 958 (1007)
T ss_pred ccccchHHHHHHH------------HHhhHHHHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhhhccCCCcchhhhhhh
Confidence 3356888988877 8778888888888999999999999999999999999988 46889999 8999
Q ss_pred ccCChhhHHHHHH
Q 046329 235 DFKHKRSLKDHVR 247 (280)
Q Consensus 235 ~F~~~~~L~~H~r 247 (280)
+|+++..+.+||.
T Consensus 959 RFSHSGSYSQHMN 971 (1007)
T KOG3623|consen 959 RFSHSGSYSQHMN 971 (1007)
T ss_pred hcccccchHhhhc
Confidence 9999888888885
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.34 E-value=3e-12 Score=114.65 Aligned_cols=135 Identities=17% Similarity=0.351 Sum_probs=93.7
Q ss_pred CCCcccccccccccccCCCCchhhccCCCcccccc--ccccccccchHHHhHhhhCCCCCCCCccccccccccCCCcccc
Q 046329 87 NPTPNDIVNKLVEGQYWIPSPEQILVGPTQFSCPV--CNKTFNRYNNMQMHMWGHGSQYRKGPESLRGTKAVSSMLRLPC 164 (280)
Q Consensus 87 ~~~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~C~~--C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~~~~~~~~C 164 (280)
....|..|...... ..|..|..... ...-.|+. |+..|. ...|..| +.|
T Consensus 406 ~~V~C~NC~~~i~l-~~l~lHe~~C~-r~~V~Cp~~~Cg~v~~-r~el~~H--------------------------~~C 456 (567)
T PLN03086 406 DTVECRNCKHYIPS-RSIALHEAYCS-RHNVVCPHDGCGIVLR-VEEAKNH--------------------------VHC 456 (567)
T ss_pred CeEECCCCCCccch-hHHHHHHhhCC-CcceeCCcccccceee-ccccccC--------------------------ccC
Confidence 34579999887764 34556654322 23345774 888773 2222333 568
Q ss_pred CCCcCCccCCCCCCCCCCCCChHHHHHHHHHhhCCCCeeCCCCCcccccchhhhHhhhcc--Ccceee-ccCcccCC---
Q 046329 165 YCCAEGCKNNIGHPRSRPLKDFRTLQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEKNC--GKLWFC-ICGSDFKH--- 238 (280)
Q Consensus 165 ~~C~~~~~~~~~~~~~k~f~~~~~L~~H~~~h~~ekp~~C~~C~k~F~~~~~L~~H~~~~--~k~~~C-~C~k~F~~--- 238 (280)
..|++. |. ...|..|+++|+ +++.|+ ||+.| .+..|..|+.++ .+++.| .|++.|..
T Consensus 457 ~~Cgk~------------f~-~s~LekH~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~ 519 (567)
T PLN03086 457 EKCGQA------------FQ-QGEMEKHMKVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGS 519 (567)
T ss_pred CCCCCc------------cc-hHHHHHHHHhcC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCcc
Confidence 888876 64 577888988876 788998 98765 567888888753 688999 89988852
Q ss_pred -------hhhHHHHHHHhCCCCCCccccCCCccccccc
Q 046329 239 -------KRSLKDHVRSFGDGHAPHTVEFGREVEEDED 269 (280)
Q Consensus 239 -------~~~L~~H~r~~h~~~~~~~C~~C~~~~~~~~ 269 (280)
.+.|..|+.+ + |.+++.|..||+.+.-.|
T Consensus 520 ~~d~~d~~s~Lt~HE~~-C-G~rt~~C~~Cgk~Vrlrd 555 (567)
T PLN03086 520 AMDVRDRLRGMSEHESI-C-GSRTAPCDSCGRSVMLKE 555 (567)
T ss_pred ccchhhhhhhHHHHHHh-c-CCcceEccccCCeeeehh
Confidence 3578888888 3 888899999988765544
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.31 E-value=3.6e-12 Score=114.16 Aligned_cols=118 Identities=19% Similarity=0.272 Sum_probs=95.7
Q ss_pred Ccccc--cccccccccCCCCchhhccCCCccccccccccccccchHHHhHhhhCCCCCCCCccccccccccCCCccccCC
Q 046329 89 TPNDI--VNKLVEGQYWIPSPEQILVGPTQFSCPVCNKTFNRYNNMQMHMWGHGSQYRKGPESLRGTKAVSSMLRLPCYC 166 (280)
Q Consensus 89 ~~C~~--c~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~~~~~~~~C~~ 166 (280)
..|+. |+..|. ...+..| +.|+.|++.|. ...|..|+..|+ .+|.|+
T Consensus 434 V~Cp~~~Cg~v~~-r~el~~H---------~~C~~Cgk~f~-~s~LekH~~~~H-------------------kpv~Cp- 482 (567)
T PLN03086 434 VVCPHDGCGIVLR-VEEAKNH---------VHCEKCGQAFQ-QGEMEKHMKVFH-------------------EPLQCP- 482 (567)
T ss_pred eeCCcccccceee-ccccccC---------ccCCCCCCccc-hHHHHHHHHhcC-------------------CCccCC-
Confidence 45663 888884 3455555 58999999996 678999998873 568999
Q ss_pred CcCCccCCCCCCCCCCCCChHHHHHHHHHhhCCCCeeCCCCCcccc----------cchhhhHhhhc-cCcceee-ccCc
Q 046329 167 CAEGCKNNIGHPRSRPLKDFRTLQTHYKRKHGAKPFGCRKCGKPFA----------VRGDWRTHEKN-CGKLWFC-ICGS 234 (280)
Q Consensus 167 C~~~~~~~~~~~~~k~f~~~~~L~~H~~~h~~ekp~~C~~C~k~F~----------~~~~L~~H~~~-~~k~~~C-~C~k 234 (280)
||+. + ....|..|+++|.+++++.|..|++.|. ....|..|..+ +.+++.| .||+
T Consensus 483 Cg~~------------~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~CG~rt~~C~~Cgk 549 (567)
T PLN03086 483 CGVV------------L-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESICGSRTAPCDSCGR 549 (567)
T ss_pred CCCC------------c-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhcCCcceEccccCC
Confidence 9854 4 5689999999999999999999999995 24589999986 4699999 9999
Q ss_pred ccCChhhHHHHHHHhCC
Q 046329 235 DFKHKRSLKDHVRSFGD 251 (280)
Q Consensus 235 ~F~~~~~L~~H~r~~h~ 251 (280)
.|..+ .|..|+-..|.
T Consensus 550 ~Vrlr-dm~~H~~~~h~ 565 (567)
T PLN03086 550 SVMLK-EMDIHQIAVHQ 565 (567)
T ss_pred eeeeh-hHHHHHHHhhc
Confidence 99887 58899988774
No 13
>PHA00733 hypothetical protein
Probab=99.28 E-value=2.2e-12 Score=94.81 Aligned_cols=85 Identities=22% Similarity=0.332 Sum_probs=61.7
Q ss_pred CccccCCCcCCccCCCCCCCCCCCCChHHHHHHHHHhhCCCCeeCCCCCcccccchhhhHhhhccCcceee-ccCcccCC
Q 046329 160 LRLPCYCCAEGCKNNIGHPRSRPLKDFRTLQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEKNCGKLWFC-ICGSDFKH 238 (280)
Q Consensus 160 ~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~~~h~~ekp~~C~~C~k~F~~~~~L~~H~~~~~k~~~C-~C~k~F~~ 238 (280)
+++.|.+|.+.+.... .+.....|.+|+.. .+.+||.|..|++.|.....|..|++++..+|.| .|++.|..
T Consensus 39 ~~~~~~~~~~~~~~~~------~l~~~~~l~~~~~~-~~~kPy~C~~Cgk~Fss~s~L~~H~r~h~~~~~C~~CgK~F~~ 111 (128)
T PHA00733 39 KRLIRAVVKTLIYNPQ------LLDESSYLYKLLTS-KAVSPYVCPLCLMPFSSSVSLKQHIRYTEHSKVCPVCGKEFRN 111 (128)
T ss_pred hhHHHHHHhhhccChh------hhcchHHHHhhccc-CCCCCccCCCCCCcCCCHHHHHHHHhcCCcCccCCCCCCccCC
Confidence 4566666665421110 02222334455433 3478999999999999999999999877778999 99999999
Q ss_pred hhhHHHHHHHhCC
Q 046329 239 KRSLKDHVRSFGD 251 (280)
Q Consensus 239 ~~~L~~H~r~~h~ 251 (280)
...|..|++.+|.
T Consensus 112 ~~sL~~H~~~~h~ 124 (128)
T PHA00733 112 TDSTLDHVCKKHN 124 (128)
T ss_pred HHHHHHHHHHhcC
Confidence 9999999998775
No 14
>PHA02768 hypothetical protein; Provisional
Probab=99.08 E-value=3.7e-11 Score=72.94 Aligned_cols=33 Identities=12% Similarity=0.334 Sum_probs=15.7
Q ss_pred CCChHHHHHHHHHhhCCCCeeCCCCCcccccchhh
Q 046329 183 LKDFRTLQTHYKRKHGAKPFGCRKCGKPFAVRGDW 217 (280)
Q Consensus 183 f~~~~~L~~H~~~h~~ekp~~C~~C~k~F~~~~~L 217 (280)
|....+|..|+++|+ ++|+|..|++.|.+.+.|
T Consensus 15 Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 15 YIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred eccHHHHHHHHHhcC--CcccCCcccceeccccee
Confidence 444444444544444 344444444444444433
No 15
>PHA02768 hypothetical protein; Provisional
Probab=99.01 E-value=1.8e-10 Score=69.93 Aligned_cols=46 Identities=17% Similarity=0.406 Sum_probs=27.1
Q ss_pred eee-ccCcccCChhhHHHHHHHhCCCCCCccccCCCccccccccCCCCCc
Q 046329 228 WFC-ICGSDFKHKRSLKDHVRSFGDGHAPHTVEFGREVEEDEDEDNDFDE 276 (280)
Q Consensus 228 ~~C-~C~k~F~~~~~L~~H~r~~h~~~~~~~C~~C~~~~~~~~~~~~~~~ 276 (280)
|.| .||+.|...++|..|+++ |+ ++|+|..|++.|.-..+..+-..
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~-H~--k~~kc~~C~k~f~~~s~l~~~~~ 52 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRK-HN--TNLKLSNCKRISLRTGEYIEIKA 52 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHh-cC--CcccCCcccceecccceeEEEec
Confidence 566 666666666666666666 33 46666666666655544444333
No 16
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.96 E-value=1.4e-10 Score=98.06 Aligned_cols=156 Identities=17% Similarity=0.235 Sum_probs=112.1
Q ss_pred CCCCcccccccccccccCCCCchhhccCCCccccccccccccccchHHHhHhhhCCCCCCCC--ccc------------c
Q 046329 86 SNPTPNDIVNKLVEGQYWIPSPEQILVGPTQFSCPVCNKTFNRYNNMQMHMWGHGSQYRKGP--ESL------------R 151 (280)
Q Consensus 86 ~~~~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~--~~~------------~ 151 (280)
..-|.|..|...|.+...|.+|....+....|.|+.|+|.|+-..+|..|.++|-.+..... ... .
T Consensus 265 iGdyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~e 344 (500)
T KOG3993|consen 265 IGDYICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQE 344 (500)
T ss_pred HHHHHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhh
Confidence 34488999999999999999998766666679999999999999999999999943321110 000 0
Q ss_pred ccc--cccCCCccccCCCcCCccCCCCCCCCCCCCChHHHHHHHHHhhCC---C---C----------------------
Q 046329 152 GTK--AVSSMLRLPCYCCAEGCKNNIGHPRSRPLKDFRTLQTHYKRKHGA---K---P---------------------- 201 (280)
Q Consensus 152 ~~~--~~~~~~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~~~h~~e---k---p---------------------- 201 (280)
..+ .-....-|.|..|++. |.....|+.|+.+|... + +
T Consensus 345 a~rsg~dss~gi~~C~~C~Kk------------FrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~ 412 (500)
T KOG3993|consen 345 AERSGDDSSSGIFSCHTCGKK------------FRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSS 412 (500)
T ss_pred ccccCCcccCceeecHHhhhh------------hHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccc
Confidence 000 0023346999999987 99999999998887531 0 0
Q ss_pred ------------------eeCCCCCcccccchhhhHhhh--ccCcceee-ccCcccCChhhHHHHHHHhCCCC
Q 046329 202 ------------------FGCRKCGKPFAVRGDWRTHEK--NCGKLWFC-ICGSDFKHKRSLKDHVRSFGDGH 253 (280)
Q Consensus 202 ------------------~~C~~C~k~F~~~~~L~~H~~--~~~k~~~C-~C~k~F~~~~~L~~H~r~~h~~~ 253 (280)
..|..|+..+..+..--.|.+ +-+.-|.| .|.-.|.+...|.+|+...|..+
T Consensus 413 a~~~~g~~vl~~a~sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~Hpse 485 (500)
T KOG3993|consen 413 ASDSHGDEVLYVAGSAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCHPSE 485 (500)
T ss_pred cccccccceeeeeccccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcChHH
Confidence 235556655555555444444 23567899 99999999999999999877654
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=98.91 E-value=8e-10 Score=57.46 Aligned_cols=26 Identities=38% Similarity=0.921 Sum_probs=24.1
Q ss_pred HHHHHHHHhhCCCCeeCCCCCccccc
Q 046329 188 TLQTHYKRKHGAKPFGCRKCGKPFAV 213 (280)
Q Consensus 188 ~L~~H~~~h~~ekp~~C~~C~k~F~~ 213 (280)
+|.+|+++|+|++||.|++|++.|.+
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEESS
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeCc
Confidence 58999999999999999999999974
No 18
>PHA00733 hypothetical protein
Probab=98.78 E-value=5.5e-09 Score=76.87 Aligned_cols=84 Identities=13% Similarity=0.173 Sum_probs=66.9
Q ss_pred cCCCccccccccccccccchHHHh--HhhhCCCCCCCCccccccccccCCCccccCCCcCCccCCCCCCCCCCCCChHHH
Q 046329 112 VGPTQFSCPVCNKTFNRYNNMQMH--MWGHGSQYRKGPESLRGTKAVSSMLRLPCYCCAEGCKNNIGHPRSRPLKDFRTL 189 (280)
Q Consensus 112 ~~~~~~~C~~C~~~f~~~~~L~~H--~~~h~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L 189 (280)
...+++.|.+|.+.|.....|..+ +..|. .....++|.|..|++. |.....|
T Consensus 36 ~~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~--------------~~~~~kPy~C~~Cgk~------------Fss~s~L 89 (128)
T PHA00733 36 PEQKRLIRAVVKTLIYNPQLLDESSYLYKLL--------------TSKAVSPYVCPLCLMP------------FSSSVSL 89 (128)
T ss_pred hhhhhHHHHHHhhhccChhhhcchHHHHhhc--------------ccCCCCCccCCCCCCc------------CCCHHHH
Confidence 346778899999998888777776 33331 1134578999999977 9999999
Q ss_pred HHHHHHhhCCCCeeCCCCCcccccchhhhHhhhc
Q 046329 190 QTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEKN 223 (280)
Q Consensus 190 ~~H~~~h~~ekp~~C~~C~k~F~~~~~L~~H~~~ 223 (280)
..|++.| +.+|.|..|++.|.....|.+|+..
T Consensus 90 ~~H~r~h--~~~~~C~~CgK~F~~~~sL~~H~~~ 121 (128)
T PHA00733 90 KQHIRYT--EHSKVCPVCGKEFRNTDSTLDHVCK 121 (128)
T ss_pred HHHHhcC--CcCccCCCCCCccCCHHHHHHHHHH
Confidence 9999977 3679999999999999999999874
No 19
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.58 E-value=2.1e-08 Score=52.03 Aligned_cols=25 Identities=20% Similarity=0.400 Sum_probs=22.8
Q ss_pred hHHHHHHHhCCCCCCccccCCCcccc
Q 046329 241 SLKDHVRSFGDGHAPHTVEFGREVEE 266 (280)
Q Consensus 241 ~L~~H~r~~h~~~~~~~C~~C~~~~~ 266 (280)
+|.+|+++ |+|++||.|++|++.|.
T Consensus 1 ~l~~H~~~-H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 1 NLRRHMRT-HTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHH-HSSSSSEEESSSSEEES
T ss_pred CHHHHhhh-cCCCCCCCCCCCcCeeC
Confidence 58999999 89999999999999874
No 20
>PHA00732 hypothetical protein
Probab=98.54 E-value=4.7e-08 Score=65.26 Aligned_cols=47 Identities=19% Similarity=0.317 Sum_probs=34.3
Q ss_pred ccccCCCcCCccCCCCCCCCCCCCChHHHHHHHHH-hhCCCCeeCCCCCcccccchhhhHhhhccC
Q 046329 161 RLPCYCCAEGCKNNIGHPRSRPLKDFRTLQTHYKR-KHGAKPFGCRKCGKPFAVRGDWRTHEKNCG 225 (280)
Q Consensus 161 ~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~~~-h~~ekp~~C~~C~k~F~~~~~L~~H~~~~~ 225 (280)
+|.|..|++. |.....|..|++. |. ++.|+.|++.|. .|..|+++..
T Consensus 1 py~C~~Cgk~------------F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~~~ 48 (79)
T PHA00732 1 MFKCPICGFT------------TVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFYSQY 48 (79)
T ss_pred CccCCCCCCc------------cCCHHHHHHHhhcccC---CCccCCCCCEeC---ChhhhhcccC
Confidence 4778888876 8888888888874 54 357888888887 4677777543
No 21
>PHA00616 hypothetical protein
Probab=98.48 E-value=5.1e-08 Score=56.36 Aligned_cols=33 Identities=27% Similarity=0.628 Sum_probs=29.1
Q ss_pred ceee-ccCcccCChhhHHHHHHHhCCCCCCccccC
Q 046329 227 LWFC-ICGSDFKHKRSLKDHVRSFGDGHAPHTVEF 260 (280)
Q Consensus 227 ~~~C-~C~k~F~~~~~L~~H~r~~h~~~~~~~C~~ 260 (280)
||+| .||+.|..++.|.+|++. |+|++++.|+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~-~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLS-VHKQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHH-hcCCCccceeE
Confidence 6899 999999999999999999 67778888865
No 22
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.44 E-value=3.7e-08 Score=83.66 Aligned_cols=82 Identities=21% Similarity=0.434 Sum_probs=68.0
Q ss_pred CccccCCCcCCccCCCCCCCCCCCCChHHHHHHHHHhhCCCCeeCCCCCcccccchhhhHhhhccC--------------
Q 046329 160 LRLPCYCCAEGCKNNIGHPRSRPLKDFRTLQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEKNCG-------------- 225 (280)
Q Consensus 160 ~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~~~h~~ekp~~C~~C~k~F~~~~~L~~H~~~~~-------------- 225 (280)
..|.|..|... |.+...|.+|.-.....--|+|++|+|.|+-..+|..|.|.|.
T Consensus 266 GdyiCqLCK~k------------YeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k 333 (500)
T KOG3993|consen 266 GDYICQLCKEK------------YEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPK 333 (500)
T ss_pred HHHHHHHHHHh------------hhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChh
Confidence 34889999877 8888999999654444445999999999999999999987321
Q ss_pred ---------------------cceee-ccCcccCChhhHHHHHHHhCCCC
Q 046329 226 ---------------------KLWFC-ICGSDFKHKRSLKDHVRSFGDGH 253 (280)
Q Consensus 226 ---------------------k~~~C-~C~k~F~~~~~L~~H~r~~h~~~ 253 (280)
..|.| .|+|.|.+...|+.|+-+||...
T Consensus 334 ~~~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~ 383 (500)
T KOG3993|consen 334 QAVETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAP 383 (500)
T ss_pred hhhhhhhhhhhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccc
Confidence 14899 99999999999999999987644
No 23
>PHA00616 hypothetical protein
Probab=98.25 E-value=4.5e-07 Score=52.45 Aligned_cols=39 Identities=13% Similarity=0.173 Sum_probs=32.3
Q ss_pred ccccCCCcCCccCCCCCCCCCCCCChHHHHHHHHHhhCCCCeeCCCCCccc
Q 046329 161 RLPCYCCAEGCKNNIGHPRSRPLKDFRTLQTHYKRKHGAKPFGCRKCGKPF 211 (280)
Q Consensus 161 ~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~~~h~~ekp~~C~~C~k~F 211 (280)
+|+|..||+. |...++|..|++.|+|++++.|..--..|
T Consensus 1 pYqC~~CG~~------------F~~~s~l~~H~r~~hg~~~~~~~~~y~~f 39 (44)
T PHA00616 1 MYQCLRCGGI------------FRKKKEVIEHLLSVHKQNKLTLEYFYIYF 39 (44)
T ss_pred CCccchhhHH------------HhhHHHHHHHHHHhcCCCccceeEEEEEE
Confidence 4889999988 99999999999999999999887543333
No 24
>PHA00732 hypothetical protein
Probab=98.06 E-value=4.7e-06 Score=55.68 Aligned_cols=48 Identities=25% Similarity=0.468 Sum_probs=41.3
Q ss_pred CeeCCCCCcccccchhhhHhhhccCcceee-ccCcccCChhhHHHHHHHhCC
Q 046329 201 PFGCRKCGKPFAVRGDWRTHEKNCGKLWFC-ICGSDFKHKRSLKDHVRSFGD 251 (280)
Q Consensus 201 p~~C~~C~k~F~~~~~L~~H~~~~~k~~~C-~C~k~F~~~~~L~~H~r~~h~ 251 (280)
||.|..|++.|.....|..|++.+..++.| .|++.|. .|..|++++-+
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~~~C~~CgKsF~---~l~~H~~~~~~ 49 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTLTKCPVCNKSYR---RLNQHFYSQYD 49 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCCCccCCCCCEeC---ChhhhhcccCC
Confidence 689999999999999999999854456899 9999998 58999987433
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=97.94 E-value=7.5e-06 Score=41.06 Aligned_cols=21 Identities=48% Similarity=1.028 Sum_probs=16.9
Q ss_pred eee-ccCcccCChhhHHHHHHH
Q 046329 228 WFC-ICGSDFKHKRSLKDHVRS 248 (280)
Q Consensus 228 ~~C-~C~k~F~~~~~L~~H~r~ 248 (280)
|.| .|++.|.++..|.+|++.
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhH
Confidence 678 888888888888888876
No 26
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.87 E-value=3.7e-06 Score=69.16 Aligned_cols=50 Identities=26% Similarity=0.606 Sum_probs=39.1
Q ss_pred CCCCeeCCC--CCcccccchhhhHhhhc---------------------cCcceee-ccCcccCChhhHHHHHH
Q 046329 198 GAKPFGCRK--CGKPFAVRGDWRTHEKN---------------------CGKLWFC-ICGSDFKHKRSLKDHVR 247 (280)
Q Consensus 198 ~ekp~~C~~--C~k~F~~~~~L~~H~~~---------------------~~k~~~C-~C~k~F~~~~~L~~H~r 247 (280)
++|||+|++ |.|.+.....|+-|+.- ..|||.| +|+|.|++...|+.|..
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 358888876 88888888888888751 1378888 88888888888888764
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=97.86 E-value=1.6e-05 Score=49.16 Aligned_cols=46 Identities=33% Similarity=0.594 Sum_probs=27.3
Q ss_pred eeCCCCCcccccchhhhHhhhc-c---Ccceee-ccCcccCChhhHHHHHHHhC
Q 046329 202 FGCRKCGKPFAVRGDWRTHEKN-C---GKLWFC-ICGSDFKHKRSLKDHVRSFG 250 (280)
Q Consensus 202 ~~C~~C~k~F~~~~~L~~H~~~-~---~k~~~C-~C~k~F~~~~~L~~H~r~~h 250 (280)
|.|++|++.|. ...|..|... | .+.+.| +|...+. .+|.+|++++|
T Consensus 3 f~CP~C~~~~~-~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 3 FTCPYCGKGFS-ESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred cCCCCCCCccC-HHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 66666766433 4566666652 1 245667 6766544 36777777655
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=97.78 E-value=2e-05 Score=39.78 Aligned_cols=23 Identities=39% Similarity=0.982 Sum_probs=16.8
Q ss_pred eee-ccCcccCChhhHHHHHHHhC
Q 046329 228 WFC-ICGSDFKHKRSLKDHVRSFG 250 (280)
Q Consensus 228 ~~C-~C~k~F~~~~~L~~H~r~~h 250 (280)
|.| .|++.|.+...|..|++++|
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 678 88888888888888888765
No 29
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.75 E-value=1.5e-05 Score=41.70 Aligned_cols=24 Identities=33% Similarity=0.675 Sum_probs=19.3
Q ss_pred ceee-ccCcccCChhhHHHHHHHhC
Q 046329 227 LWFC-ICGSDFKHKRSLKDHVRSFG 250 (280)
Q Consensus 227 ~~~C-~C~k~F~~~~~L~~H~r~~h 250 (280)
+|.| .|++.|.+...|..|++.|+
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhc
Confidence 5788 88888888888888887754
No 30
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.72 E-value=2.7e-05 Score=54.79 Aligned_cols=76 Identities=22% Similarity=0.406 Sum_probs=23.2
Q ss_pred ccCCCcCCccCCCCCCCCCCCCChHHHHHHHHHhhCCCCeeCCCCCcccccchhhhHhhhc-cCcceee-ccCcccCChh
Q 046329 163 PCYCCAEGCKNNIGHPRSRPLKDFRTLQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEKN-CGKLWFC-ICGSDFKHKR 240 (280)
Q Consensus 163 ~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~~~h~~ekp~~C~~C~k~F~~~~~L~~H~~~-~~k~~~C-~C~k~F~~~~ 240 (280)
+|..|+.. |.....|..|+...++-..- ....+.....+..+++. -...+.| .|++.|.+..
T Consensus 1 ~C~~C~~~------------f~~~~~l~~H~~~~H~~~~~----~~~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~ 64 (100)
T PF12756_consen 1 QCLFCDES------------FSSVDDLLQHMKKKHGFDIP----DQKYLVDPNRLLNYLRKKVKESFRCPYCNKTFRSRE 64 (100)
T ss_dssp ----------------------------------------------------------------SSEEBSSSS-EESSHH
T ss_pred Cccccccc------------cccccccccccccccccccc----cccccccccccccccccccCCCCCCCccCCCCcCHH
Confidence 47888877 88899999999865543211 11222244445555543 2347999 9999999999
Q ss_pred hHHHHHHHhCCCCC
Q 046329 241 SLKDHVRSFGDGHA 254 (280)
Q Consensus 241 ~L~~H~r~~h~~~~ 254 (280)
.|..|++.++....
T Consensus 65 ~l~~Hm~~~~H~~~ 78 (100)
T PF12756_consen 65 ALQEHMRSKHHKKR 78 (100)
T ss_dssp HHHHHHHHTTTTC-
T ss_pred HHHHHHcCccCCCc
Confidence 99999998644433
No 31
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.67 E-value=2e-05 Score=39.48 Aligned_cols=23 Identities=39% Similarity=1.022 Sum_probs=21.0
Q ss_pred cccccccccccccchHHHhHhhh
Q 046329 117 FSCPVCNKTFNRYNNMQMHMWGH 139 (280)
Q Consensus 117 ~~C~~C~~~f~~~~~L~~H~~~h 139 (280)
|.|+.|++.|.....|..|++.|
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 68999999999999999999875
No 32
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=97.48 E-value=0.0002 Score=44.27 Aligned_cols=22 Identities=27% Similarity=0.560 Sum_probs=13.4
Q ss_pred cccccccccccccchHHHhHhhh
Q 046329 117 FSCPVCNKTFNRYNNMQMHMWGH 139 (280)
Q Consensus 117 ~~C~~C~~~f~~~~~L~~H~~~h 139 (280)
|.|+.|++. .....|..|....
T Consensus 3 f~CP~C~~~-~~~~~L~~H~~~~ 24 (54)
T PF05605_consen 3 FTCPYCGKG-FSESSLVEHCEDE 24 (54)
T ss_pred cCCCCCCCc-cCHHHHHHHHHhH
Confidence 667777773 3445677776543
No 33
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.18 E-value=0.00017 Score=59.58 Aligned_cols=26 Identities=35% Similarity=0.838 Sum_probs=23.3
Q ss_pred cCCCcccccc--ccccccccchHHHhHh
Q 046329 112 VGPTQFSCPV--CNKTFNRYNNMQMHMW 137 (280)
Q Consensus 112 ~~~~~~~C~~--C~~~f~~~~~L~~H~~ 137 (280)
.+++||+|++ |.|+|.....|+.|+.
T Consensus 345 ~d~KpykCpV~gC~K~YknqnGLKYH~l 372 (423)
T COG5189 345 KDGKPYKCPVEGCNKKYKNQNGLKYHML 372 (423)
T ss_pred ecCceecCCCCCchhhhccccchhhhhh
Confidence 3469999998 9999999999999975
No 34
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.15 E-value=0.00024 Score=35.65 Aligned_cols=23 Identities=39% Similarity=1.009 Sum_probs=19.3
Q ss_pred cccccccccccccchHHHhHhhh
Q 046329 117 FSCPVCNKTFNRYNNMQMHMWGH 139 (280)
Q Consensus 117 ~~C~~C~~~f~~~~~L~~H~~~h 139 (280)
|.|++|++.|.....|..|+..|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHhh
Confidence 67999999999999999999876
No 35
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.13 E-value=0.0002 Score=37.28 Aligned_cols=25 Identities=32% Similarity=0.687 Sum_probs=22.6
Q ss_pred ccccccccccccccchHHHhHhhhC
Q 046329 116 QFSCPVCNKTFNRYNNMQMHMWGHG 140 (280)
Q Consensus 116 ~~~C~~C~~~f~~~~~L~~H~~~h~ 140 (280)
+|.|..|++.|.....|..|++.|.
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhc
Confidence 5889999999999999999998873
No 36
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.13 E-value=0.00024 Score=49.91 Aligned_cols=23 Identities=30% Similarity=0.687 Sum_probs=17.1
Q ss_pred CeeCCCCCcccccchhhhHhhhc
Q 046329 201 PFGCRKCGKPFAVRGDWRTHEKN 223 (280)
Q Consensus 201 p~~C~~C~k~F~~~~~L~~H~~~ 223 (280)
.+.|..|++.|.....|..|++.
T Consensus 50 ~~~C~~C~~~f~s~~~l~~Hm~~ 72 (100)
T PF12756_consen 50 SFRCPYCNKTFRSREALQEHMRS 72 (100)
T ss_dssp SEEBSSSS-EESSHHHHHHHHHH
T ss_pred CCCCCccCCCCcCHHHHHHHHcC
Confidence 57788888888888888888774
No 37
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.89 E-value=0.0012 Score=60.87 Aligned_cols=106 Identities=21% Similarity=0.290 Sum_probs=67.1
Q ss_pred cccccchHHHhHhhhCCCCCCCCccccccccccCCCccccCCCcCCccCCCCCCCCCCCCChHHHHHHHHHh-hCCCC--
Q 046329 125 TFNRYNNMQMHMWGHGSQYRKGPESLRGTKAVSSMLRLPCYCCAEGCKNNIGHPRSRPLKDFRTLQTHYKRK-HGAKP-- 201 (280)
Q Consensus 125 ~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~~~h-~~ekp-- 201 (280)
.|.....|+.|+...+ +.+.|..|-..-+. . +..+...+...|..|++.- .+++-
T Consensus 123 ~~~s~~~Lk~H~~~~H-------------------~~~~c~lC~~~~ki--f-~~e~k~Yt~~el~~h~~~gd~d~~s~r 180 (669)
T KOG2231|consen 123 EFKSVENLKNHMRDQH-------------------KLHLCSLCLQNLKI--F-INERKLYTRAELNLHLMFGDPDDESCR 180 (669)
T ss_pred chhHHHHHHHHHHHhh-------------------hhhcccccccccee--e-eeeeehehHHHHHHHHhcCCCcccccc
Confidence 3447788999985332 45667777543111 1 1112245567788887642 12222
Q ss_pred --eeCCCCCcccccchhhhHhhhccCcceee-ccC------cccCChhhHHHHHHHhCCCCCCcccc
Q 046329 202 --FGCRKCGKPFAVRGDWRTHEKNCGKLWFC-ICG------SDFKHKRSLKDHVRSFGDGHAPHTVE 259 (280)
Q Consensus 202 --~~C~~C~k~F~~~~~L~~H~~~~~k~~~C-~C~------k~F~~~~~L~~H~r~~h~~~~~~~C~ 259 (280)
-.|..|...|.....|.+|++. ..|.| .|. .-|.....|..|.|..| |.|+
T Consensus 181 Ghp~C~~C~~~fld~~el~rH~~~--~h~~chfC~~~~~~neyy~~~~dLe~HfR~~H-----flCE 240 (669)
T KOG2231|consen 181 GHPLCKFCHERFLDDDELYRHLRF--DHEFCHFCDYKTGQNEYYNDYDDLEEHFRKGH-----FLCE 240 (669)
T ss_pred CCccchhhhhhhccHHHHHHhhcc--ceeheeecCcccccchhcccchHHHHHhhhcC-----cccc
Confidence 4688899999999999999883 23556 553 45777788999988866 5666
No 38
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.87 E-value=0.00072 Score=34.41 Aligned_cols=21 Identities=48% Similarity=0.996 Sum_probs=17.7
Q ss_pred eee-ccCcccCChhhHHHHHHH
Q 046329 228 WFC-ICGSDFKHKRSLKDHVRS 248 (280)
Q Consensus 228 ~~C-~C~k~F~~~~~L~~H~r~ 248 (280)
|.| .|++.|.....|..|++.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~ 22 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRT 22 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHH
Confidence 578 888888888888888886
No 39
>PRK04860 hypothetical protein; Provisional
Probab=96.84 E-value=0.00081 Score=51.41 Aligned_cols=39 Identities=21% Similarity=0.247 Sum_probs=31.5
Q ss_pred ceeeccCcccCChhhHHHHHHHhCCCCCCccccCCCccccccc
Q 046329 227 LWFCICGSDFKHKRSLKDHVRSFGDGHAPHTVEFGREVEEDED 269 (280)
Q Consensus 227 ~~~C~C~k~F~~~~~L~~H~r~~h~~~~~~~C~~C~~~~~~~~ 269 (280)
+|.|.|++ ....+++|.++ |+++++|.|..|++.+.-.+
T Consensus 119 ~Y~C~C~~---~~~~~rrH~ri-~~g~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 119 PYRCKCQE---HQLTVRRHNRV-VRGEAVYRCRRCGETLVFKG 157 (160)
T ss_pred EEEcCCCC---eeCHHHHHHHH-hcCCccEECCCCCceeEEec
Confidence 68888877 66778999999 88889999999998775433
No 40
>PRK04860 hypothetical protein; Provisional
Probab=96.67 E-value=0.0012 Score=50.49 Aligned_cols=30 Identities=27% Similarity=0.703 Sum_probs=22.8
Q ss_pred hHHHHHHHHHhhCCCCeeCCCCCcccccch
Q 046329 186 FRTLQTHYKRKHGAKPFGCRKCGKPFAVRG 215 (280)
Q Consensus 186 ~~~L~~H~~~h~~ekp~~C~~C~k~F~~~~ 215 (280)
...+.+|.++|+|+++|.|..|+..|....
T Consensus 128 ~~~~rrH~ri~~g~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 128 QLTVRRHNRVVRGEAVYRCRRCGETLVFKG 157 (160)
T ss_pred eCHHHHHHHHhcCCccEECCCCCceeEEec
Confidence 456788888888888888888888776543
No 41
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.51 E-value=0.0018 Score=32.59 Aligned_cols=22 Identities=27% Similarity=0.578 Sum_probs=15.7
Q ss_pred eee-ccCcccCChhhHHHHHHHhC
Q 046329 228 WFC-ICGSDFKHKRSLKDHVRSFG 250 (280)
Q Consensus 228 ~~C-~C~k~F~~~~~L~~H~r~~h 250 (280)
|.| .|+.... ...|.+|++++|
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 678 8888777 778888888765
No 42
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.44 E-value=0.0019 Score=32.80 Aligned_cols=21 Identities=43% Similarity=1.103 Sum_probs=15.9
Q ss_pred eee-ccCcccCChhhHHHHHHH
Q 046329 228 WFC-ICGSDFKHKRSLKDHVRS 248 (280)
Q Consensus 228 ~~C-~C~k~F~~~~~L~~H~r~ 248 (280)
|.| .|++.|.+...|..|++.
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRS 22 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTT
T ss_pred CCCCCCCCCcCCHHHHHHHHCc
Confidence 567 777777777777777765
No 43
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=96.38 E-value=0.0034 Score=61.54 Aligned_cols=96 Identities=17% Similarity=0.258 Sum_probs=62.9
Q ss_pred CCCcccccccccccccCCCCchh-hccCCCccccccccccccccchHHHhHhhhCCCCCC--------CCcccccccccc
Q 046329 87 NPTPNDIVNKLVEGQYWIPSPEQ-ILVGPTQFSCPVCNKTFNRYNNMQMHMWGHGSQYRK--------GPESLRGTKAVS 157 (280)
Q Consensus 87 ~~~~C~~c~~~~~~~~~l~~h~~-~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~--------~~~~~~~~~~~~ 157 (280)
....|..|...+.....+..|+. ++...+.|+|+.|+..|.....|..||+.-+.+... .....++.--.-
T Consensus 435 ~l~e~~~~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~ 514 (1406)
T KOG1146|consen 435 TLVELTKAEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRC 514 (1406)
T ss_pred ccccccchhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccC
Confidence 34457777778888888887765 466678899999999999999999999873322111 111111111223
Q ss_pred CCCccccCCCcCCccCCCCCCCCCCCCChHHHHHHHH
Q 046329 158 SMLRLPCYCCAEGCKNNIGHPRSRPLKDFRTLQTHYK 194 (280)
Q Consensus 158 ~~~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~~ 194 (280)
+.++|.|..|... +..+.+|.+|+.
T Consensus 515 ~~~p~~C~~C~~s------------tttng~Lsihlq 539 (1406)
T KOG1146|consen 515 PGKPYPCRACNYS------------TTTNGNLSIHLQ 539 (1406)
T ss_pred CCCcccceeeeee------------eecchHHHHHHH
Confidence 3456777777766 666667777765
No 44
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=96.33 E-value=0.0066 Score=54.23 Aligned_cols=56 Identities=25% Similarity=0.382 Sum_probs=51.9
Q ss_pred CCCcccccccccccccCCCCchh--hccCC--Cccccc--cccccccccchHHHhHhhhCCC
Q 046329 87 NPTPNDIVNKLVEGQYWIPSPEQ--ILVGP--TQFSCP--VCNKTFNRYNNMQMHMWGHGSQ 142 (280)
Q Consensus 87 ~~~~C~~c~~~~~~~~~l~~h~~--~h~~~--~~~~C~--~C~~~f~~~~~L~~H~~~h~~~ 142 (280)
.++.|..|...|.....|..|.+ .|.++ +++.|+ .|++.|.+...+..|...|.+.
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~ 349 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSI 349 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCC
Confidence 57899999999999999999999 89999 999999 7999999999999999988544
No 45
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.32 E-value=0.0022 Score=32.50 Aligned_cols=23 Identities=35% Similarity=0.858 Sum_probs=21.1
Q ss_pred cccccccccccccchHHHhHhhh
Q 046329 117 FSCPVCNKTFNRYNNMQMHMWGH 139 (280)
Q Consensus 117 ~~C~~C~~~f~~~~~L~~H~~~h 139 (280)
|.|..|++.|.....|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 57999999999999999999877
No 46
>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=96.05 E-value=0.0049 Score=36.63 Aligned_cols=19 Identities=32% Similarity=0.576 Sum_probs=9.3
Q ss_pred CCChHHHHHHHHHhhCCCC
Q 046329 183 LKDFRTLQTHYKRKHGAKP 201 (280)
Q Consensus 183 f~~~~~L~~H~~~h~~ekp 201 (280)
+....+|.+|+.++++.||
T Consensus 34 ~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 34 IRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp ESSHHHHHHHHHHHTTTS-
T ss_pred ccchhhHHHHHHHHhcccC
Confidence 4444555555555554443
No 47
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=96.02 E-value=0.0052 Score=36.51 Aligned_cols=26 Identities=27% Similarity=0.554 Sum_probs=13.9
Q ss_pred Ccceee-ccCcccCChhhHHHHHHHhC
Q 046329 225 GKLWFC-ICGSDFKHKRSLKDHVRSFG 250 (280)
Q Consensus 225 ~k~~~C-~C~k~F~~~~~L~~H~r~~h 250 (280)
+.|-.| +|+..+.+..+|++|+.+.|
T Consensus 22 ~~PatCP~C~a~~~~srnLrRHle~~H 48 (54)
T PF09237_consen 22 EQPATCPICGAVIRQSRNLRRHLEIRH 48 (54)
T ss_dssp S--EE-TTT--EESSHHHHHHHHHHHT
T ss_pred CCCCCCCcchhhccchhhHHHHHHHHh
Confidence 456666 67777777777777776644
No 48
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=95.85 E-value=0.0039 Score=31.58 Aligned_cols=23 Identities=35% Similarity=0.872 Sum_probs=20.3
Q ss_pred cccccccccccccchHHHhHhhh
Q 046329 117 FSCPVCNKTFNRYNNMQMHMWGH 139 (280)
Q Consensus 117 ~~C~~C~~~f~~~~~L~~H~~~h 139 (280)
|.|.+|++.|.....|..|++.+
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 67999999999999999998754
No 49
>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=95.69 E-value=0.0021 Score=33.38 Aligned_cols=20 Identities=30% Similarity=0.672 Sum_probs=9.4
Q ss_pred eeCCCCCcccccchhhhHhh
Q 046329 202 FGCRKCGKPFAVRGDWRTHE 221 (280)
Q Consensus 202 ~~C~~C~k~F~~~~~L~~H~ 221 (280)
|.|..|++.|.....|..|+
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~ 21 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHM 21 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCT
T ss_pred CCcccCCCCcCCHHHHHHHH
Confidence 34444444444444444444
No 50
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.64 E-value=0.015 Score=53.97 Aligned_cols=72 Identities=24% Similarity=0.395 Sum_probs=52.7
Q ss_pred CCChHHHHHHHHHhhCCCCeeCCCC----------CcccccchhhhHhhhccC-------cceee-ccCcccCChhhHHH
Q 046329 183 LKDFRTLQTHYKRKHGAKPFGCRKC----------GKPFAVRGDWRTHEKNCG-------KLWFC-ICGSDFKHKRSLKD 244 (280)
Q Consensus 183 f~~~~~L~~H~~~h~~ekp~~C~~C----------~k~F~~~~~L~~H~~~~~-------k~~~C-~C~k~F~~~~~L~~ 244 (280)
|.....|+.|++..+ +.+.|.+| .+.|+ ...|..|+..+. -.-.| .|...|-....|.+
T Consensus 124 ~~s~~~Lk~H~~~~H--~~~~c~lC~~~~kif~~e~k~Yt-~~el~~h~~~gd~d~~s~rGhp~C~~C~~~fld~~el~r 200 (669)
T KOG2231|consen 124 FKSVENLKNHMRDQH--KLHLCSLCLQNLKIFINERKLYT-RAELNLHLMFGDPDDESCRGHPLCKFCHERFLDDDELYR 200 (669)
T ss_pred hhHHHHHHHHHHHhh--hhhccccccccceeeeeeeeheh-HHHHHHHHhcCCCccccccCCccchhhhhhhccHHHHHH
Confidence 788899999997544 23445443 34444 567888988532 12478 99999999999999
Q ss_pred HHHHhCCCCCCccccCCC
Q 046329 245 HVRSFGDGHAPHTVEFGR 262 (280)
Q Consensus 245 H~r~~h~~~~~~~C~~C~ 262 (280)
|++..| |.|.+|+
T Consensus 201 H~~~~h-----~~chfC~ 213 (669)
T KOG2231|consen 201 HLRFDH-----EFCHFCD 213 (669)
T ss_pred hhccce-----eheeecC
Confidence 999865 7788885
No 51
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=95.36 E-value=0.013 Score=29.29 Aligned_cols=12 Identities=42% Similarity=0.634 Sum_probs=7.3
Q ss_pred hHHHHHHHHHhh
Q 046329 186 FRTLQTHYKRKH 197 (280)
Q Consensus 186 ~~~L~~H~~~h~ 197 (280)
...|.+|++.|+
T Consensus 12 ~~~l~~H~~~~H 23 (24)
T PF13909_consen 12 KSNLKRHLKRHH 23 (24)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHhhC
Confidence 556666666654
No 52
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=95.35 E-value=0.0085 Score=31.03 Aligned_cols=22 Identities=32% Similarity=0.847 Sum_probs=17.9
Q ss_pred ceee-ccCcccCChhhHHHHHHH
Q 046329 227 LWFC-ICGSDFKHKRSLKDHVRS 248 (280)
Q Consensus 227 ~~~C-~C~k~F~~~~~L~~H~r~ 248 (280)
.|.| .|++.|.+...|..|+++
T Consensus 1 q~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 1 QFYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp -CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCCcccCCCCcCCHHHHHHHHcc
Confidence 0578 899999999999888865
No 53
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=94.56 E-value=0.023 Score=28.84 Aligned_cols=19 Identities=37% Similarity=0.761 Sum_probs=11.6
Q ss_pred eCCCCCcccccchhhhHhhh
Q 046329 203 GCRKCGKPFAVRGDWRTHEK 222 (280)
Q Consensus 203 ~C~~C~k~F~~~~~L~~H~~ 222 (280)
.|+.||+.| ....|.+|+.
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHH
Confidence 566666666 3556666654
No 54
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.66 E-value=0.03 Score=47.27 Aligned_cols=63 Identities=24% Similarity=0.478 Sum_probs=34.7
Q ss_pred CCChHHHHHHHHHhhCCCCeeCCCCCc-------ccccchhhhHhhhccCcceee---ccC----cccCChhhHHHHHHH
Q 046329 183 LKDFRTLQTHYKRKHGAKPFGCRKCGK-------PFAVRGDWRTHEKNCGKLWFC---ICG----SDFKHKRSLKDHVRS 248 (280)
Q Consensus 183 f~~~~~L~~H~~~h~~ekp~~C~~C~k-------~F~~~~~L~~H~~~~~k~~~C---~C~----k~F~~~~~L~~H~r~ 248 (280)
|..-..|..|+|..+. .|-+|++ .|.....|.+|.+ .-.|.| .|- ..|.....|..|+-.
T Consensus 230 FYdDDEL~~HcR~~HE----~ChICD~v~p~~~QYFK~Y~~Le~HF~--~~hy~ct~qtc~~~k~~vf~~~~el~~h~~~ 303 (493)
T COG5236 230 FYDDDELRRHCRLRHE----ACHICDMVGPIRYQYFKSYEDLEAHFR--NAHYCCTFQTCRVGKCYVFPYHTELLEHLTR 303 (493)
T ss_pred ecChHHHHHHHHhhhh----hhhhhhccCccchhhhhCHHHHHHHhh--cCceEEEEEEEecCcEEEeccHHHHHHHHHH
Confidence 5555666666664331 3444443 3555555555554 223555 232 357777777777766
Q ss_pred hCC
Q 046329 249 FGD 251 (280)
Q Consensus 249 ~h~ 251 (280)
.|.
T Consensus 304 ~h~ 306 (493)
T COG5236 304 FHK 306 (493)
T ss_pred Hhh
Confidence 554
No 55
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=93.55 E-value=0.025 Score=55.86 Aligned_cols=66 Identities=23% Similarity=0.373 Sum_probs=53.2
Q ss_pred CCChHHHHHHHH-HhhCCCCeeCCCCCcccccchhhhHhhhc---------------------------cCcceee-ccC
Q 046329 183 LKDFRTLQTHYK-RKHGAKPFGCRKCGKPFAVRGDWRTHEKN---------------------------CGKLWFC-ICG 233 (280)
Q Consensus 183 f~~~~~L~~H~~-~h~~ekp~~C~~C~k~F~~~~~L~~H~~~---------------------------~~k~~~C-~C~ 233 (280)
+.....+..|+. .|+-.|-|+|+.|+..|.....|..|+|+ ..++|.| .|.
T Consensus 446 ~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C~ 525 (1406)
T KOG1146|consen 446 LESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRACN 525 (1406)
T ss_pred hhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceeee
Confidence 444455555554 46666889999999999999999999974 1358999 999
Q ss_pred cccCChhhHHHHHHH
Q 046329 234 SDFKHKRSLKDHVRS 248 (280)
Q Consensus 234 k~F~~~~~L~~H~r~ 248 (280)
.++..+.+|.+|+..
T Consensus 526 ~stttng~LsihlqS 540 (1406)
T KOG1146|consen 526 YSTTTNGNLSIHLQS 540 (1406)
T ss_pred eeeecchHHHHHHHH
Confidence 999999999999976
No 56
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=93.54 E-value=0.055 Score=27.43 Aligned_cols=20 Identities=35% Similarity=0.755 Sum_probs=17.1
Q ss_pred eee-ccCcccCChhhHHHHHHH
Q 046329 228 WFC-ICGSDFKHKRSLKDHVRS 248 (280)
Q Consensus 228 ~~C-~C~k~F~~~~~L~~H~r~ 248 (280)
..| .||+.| ....|.+|+++
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 479 999999 77789999876
No 57
>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=93.53 E-value=0.057 Score=43.80 Aligned_cols=15 Identities=27% Similarity=0.762 Sum_probs=9.2
Q ss_pred cCCCccccccccccc
Q 046329 112 VGPTQFSCPVCNKTF 126 (280)
Q Consensus 112 ~~~~~~~C~~C~~~f 126 (280)
+|.+.|.|..|...+
T Consensus 138 hGGrif~CsfC~~fl 152 (314)
T PF06524_consen 138 HGGRIFKCSFCDNFL 152 (314)
T ss_pred CCCeEEEeecCCCee
Confidence 355667777776643
No 58
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=92.81 E-value=0.29 Score=34.82 Aligned_cols=46 Identities=20% Similarity=0.267 Sum_probs=29.5
Q ss_pred eCCCCCcccccchhhhHhhhccCcceee-ccCcccCChhhHHHHHHH
Q 046329 203 GCRKCGKPFAVRGDWRTHEKNCGKLWFC-ICGSDFKHKRSLKDHVRS 248 (280)
Q Consensus 203 ~C~~C~k~F~~~~~L~~H~~~~~k~~~C-~C~k~F~~~~~L~~H~r~ 248 (280)
.|--|.+.|........=.......|.| .|.+.|--.-++-.|..+
T Consensus 57 ~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~L 103 (112)
T TIGR00622 57 FCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESL 103 (112)
T ss_pred cccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhc
Confidence 3778888887543211110122356888 888888888888888877
No 59
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=92.72 E-value=0.08 Score=29.06 Aligned_cols=22 Identities=23% Similarity=0.782 Sum_probs=15.3
Q ss_pred ceee-ccCcccCChhhHHHHHHH
Q 046329 227 LWFC-ICGSDFKHKRSLKDHVRS 248 (280)
Q Consensus 227 ~~~C-~C~k~F~~~~~L~~H~r~ 248 (280)
+|.| .|++.|.+...+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 4667 777777777777777654
No 60
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=92.52 E-value=0.061 Score=43.06 Aligned_cols=42 Identities=29% Similarity=0.530 Sum_probs=32.6
Q ss_pred ccCCCcCCccCCCCCCCCCCCCChHHHHHHHHHhhCCCCeeCCCCCcccccchhhhHh
Q 046329 163 PCYCCAEGCKNNIGHPRSRPLKDFRTLQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTH 220 (280)
Q Consensus 163 ~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~~~h~~ekp~~C~~C~k~F~~~~~L~~H 220 (280)
.|+.|+.. |....-|.+|++. |-|+|.+|-|....--.|..|
T Consensus 12 wcwycnre------------fddekiliqhqka----khfkchichkkl~sgpglsih 53 (341)
T KOG2893|consen 12 WCWYCNRE------------FDDEKILIQHQKA----KHFKCHICHKKLFSGPGLSIH 53 (341)
T ss_pred eeeecccc------------cchhhhhhhhhhh----ccceeeeehhhhccCCCceee
Confidence 48899876 8888889888775 448999998776666666666
No 61
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=92.47 E-value=0.15 Score=43.13 Aligned_cols=47 Identities=21% Similarity=0.178 Sum_probs=35.1
Q ss_pred eeCCCCCcccccchhhhHhhhc-cC----------------------------cceee-ccCcccCChhhHHHHHHH
Q 046329 202 FGCRKCGKPFAVRGDWRTHEKN-CG----------------------------KLWFC-ICGSDFKHKRSLKDHVRS 248 (280)
Q Consensus 202 ~~C~~C~k~F~~~~~L~~H~~~-~~----------------------------k~~~C-~C~k~F~~~~~L~~H~r~ 248 (280)
-+|-.|.....+...|..||++ |+ +.-.| .|.-.|...-.|..||-.
T Consensus 280 v~CLfC~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~e 356 (423)
T KOG2482|consen 280 VVCLFCTNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMVE 356 (423)
T ss_pred eEEEeeccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhccc
Confidence 4777777777777777777762 21 12357 899999999999999965
No 62
>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=92.17 E-value=0.1 Score=28.62 Aligned_cols=22 Identities=27% Similarity=0.451 Sum_probs=19.6
Q ss_pred CeeCCCCCcccccchhhhHhhh
Q 046329 201 PFGCRKCGKPFAVRGDWRTHEK 222 (280)
Q Consensus 201 p~~C~~C~k~F~~~~~L~~H~~ 222 (280)
+|.|.+|++.|.....+..|+.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccCCccCCHHHHHHHHC
Confidence 5889999999999999999986
No 63
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=91.66 E-value=0.056 Score=43.27 Aligned_cols=50 Identities=26% Similarity=0.483 Sum_probs=39.5
Q ss_pred CCCeeCCCCCcccccchhhhHhhhccCcceee-ccCcccCChhhHHHHHHHhCC
Q 046329 199 AKPFGCRKCGKPFAVRGDWRTHEKNCGKLWFC-ICGSDFKHKRSLKDHVRSFGD 251 (280)
Q Consensus 199 ekp~~C~~C~k~F~~~~~L~~H~~~~~k~~~C-~C~k~F~~~~~L~~H~r~~h~ 251 (280)
.||| |.+|.+-|....-|..|++ .|.|+| +|.|..-+--.|..|-...|.
T Consensus 9 ~kpw-cwycnrefddekiliqhqk--akhfkchichkkl~sgpglsihcmqvhk 59 (341)
T KOG2893|consen 9 DKPW-CWYCNREFDDEKILIQHQK--AKHFKCHICHKKLFSGPGLSIHCMQVHK 59 (341)
T ss_pred CCce-eeecccccchhhhhhhhhh--hccceeeeehhhhccCCCceeehhhhhh
Confidence 3555 8899999999999999987 788999 999887776667766554443
No 64
>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=90.46 E-value=0.19 Score=27.37 Aligned_cols=10 Identities=20% Similarity=0.195 Sum_probs=5.4
Q ss_pred CCccccCCCc
Q 046329 254 APHTVEFGRE 263 (280)
Q Consensus 254 ~~~~C~~C~~ 263 (280)
.++.|++|+-
T Consensus 16 ~~~~CP~Cg~ 25 (33)
T cd00350 16 APWVCPVCGA 25 (33)
T ss_pred CCCcCcCCCC
Confidence 4555555554
No 65
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=90.44 E-value=0.19 Score=40.75 Aligned_cols=46 Identities=28% Similarity=0.643 Sum_probs=34.5
Q ss_pred cccCCCcCCccCCCCCCCCCCCCChHHHHHHHHHhhCCCCeeCCCCCcccccchhhhHhhh
Q 046329 162 LPCYCCAEGCKNNIGHPRSRPLKDFRTLQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEK 222 (280)
Q Consensus 162 ~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~~~h~~ekp~~C~~C~k~F~~~~~L~~H~~ 222 (280)
|.|..||.. .-+..+.+|+-.-.| .-|.|-.|++.|.. ..+..|..
T Consensus 4 FtCnvCgEs-------------vKKp~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 4 FTCNVCGES-------------VKKPQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred Eehhhhhhh-------------ccccchHHHHHhccC-CeeEEeeccccccc-chhhhhhh
Confidence 788888876 234567778777776 56888888888887 67777876
No 66
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=89.77 E-value=0.11 Score=46.19 Aligned_cols=122 Identities=17% Similarity=0.236 Sum_probs=78.7
Q ss_pred CccccccccccccccchHHHhHh--hhCCCCCCCCccccccccccCC--CccccC--CCcCCccCCCCCCCCCCCCChHH
Q 046329 115 TQFSCPVCNKTFNRYNNMQMHMW--GHGSQYRKGPESLRGTKAVSSM--LRLPCY--CCAEGCKNNIGHPRSRPLKDFRT 188 (280)
Q Consensus 115 ~~~~C~~C~~~f~~~~~L~~H~~--~h~~~~~~~~~~~~~~~~~~~~--~~~~C~--~C~~~~~~~~~~~~~k~f~~~~~ 188 (280)
.++.|..|...|.....|..|.+ .| .++ +++.|. .|++. |.....
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h-----------------~~~~~~~~~~p~~~~~~~------------~~~~~~ 338 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNH-----------------SGESLKPFSCPYSLCGKL------------FSRNDA 338 (467)
T ss_pred cCCCCccccCCcccccccccccccccc-----------------ccccCCceeeeccCCCcc------------cccccc
Confidence 46889999999999999999988 66 334 678888 68877 777788
Q ss_pred HHHHHHHhhCCCCeeCCC--CCcccccchh-----------------------------------hhHhhhcc--Cc--c
Q 046329 189 LQTHYKRKHGAKPFGCRK--CGKPFAVRGD-----------------------------------WRTHEKNC--GK--L 227 (280)
Q Consensus 189 L~~H~~~h~~ekp~~C~~--C~k~F~~~~~-----------------------------------L~~H~~~~--~k--~ 227 (280)
+..|..+|.+.+++.+.. |.+.+..... +..|...+ .. .
T Consensus 339 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 418 (467)
T COG5048 339 LKRHILLHTSISPAKEKLLNSSSKFSPLLNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYN 418 (467)
T ss_pred ccCCcccccCCCccccccccCccccccccCCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcC
Confidence 888888888777666643 3333333222 11111110 11 2
Q ss_pred eee-ccCcccCChhhHHHHHHHhCCCCCCccccCCCcccc
Q 046329 228 WFC-ICGSDFKHKRSLKDHVRSFGDGHAPHTVEFGREVEE 266 (280)
Q Consensus 228 ~~C-~C~k~F~~~~~L~~H~r~~h~~~~~~~C~~C~~~~~ 266 (280)
+.+ .|.+.|.....|..|++. |....++.|..+.....
T Consensus 419 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~ 457 (467)
T COG5048 419 CKNPPCSKSFNRHYNLIPHKKI-HTNHAPLLCSILKSFRR 457 (467)
T ss_pred CCCCcchhhccCcccccccccc-cccCCceeeccccccch
Confidence 334 677777777777777777 55555555555544433
No 67
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=89.23 E-value=0.99 Score=38.39 Aligned_cols=51 Identities=20% Similarity=0.436 Sum_probs=42.1
Q ss_pred CeeCCCCCcccccchhhhHhhhc--cC----------c------------------------------------------
Q 046329 201 PFGCRKCGKPFAVRGDWRTHEKN--CG----------K------------------------------------------ 226 (280)
Q Consensus 201 p~~C~~C~k~F~~~~~L~~H~~~--~~----------k------------------------------------------ 226 (280)
.+.|-.|.+.|..+..|+.||+. |. +
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 37899999999999999999962 11 1
Q ss_pred --c--eee-ccCcccCChhhHHHHHHHhCC
Q 046329 227 --L--WFC-ICGSDFKHKRSLKDHVRSFGD 251 (280)
Q Consensus 227 --~--~~C-~C~k~F~~~~~L~~H~r~~h~ 251 (280)
+ .+| .|....-+...|..||++.|.
T Consensus 275 a~a~~v~CLfC~~~~en~~~l~eHmk~vHe 304 (423)
T KOG2482|consen 275 AEALSVVCLFCTNFYENPVFLFEHMKIVHE 304 (423)
T ss_pred CCccceEEEeeccchhhHHHHHHHHHHHHH
Confidence 1 279 999999999999999999874
No 68
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=88.65 E-value=0.16 Score=39.73 Aligned_cols=79 Identities=23% Similarity=0.501 Sum_probs=59.9
Q ss_pred CccccCCCcCCccCCCCCCCCCCCCChHHHHHHHHHhhCCCCeeCCCCCcccccchhhhHhhh------------ccCcc
Q 046329 160 LRLPCYCCAEGCKNNIGHPRSRPLKDFRTLQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEK------------NCGKL 227 (280)
Q Consensus 160 ~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~~~h~~ekp~~C~~C~k~F~~~~~L~~H~~------------~~~k~ 227 (280)
..|.|..-| |. ..|.....+..|..+-+|. .|..|.+.|.+...|..|+. .|.--
T Consensus 78 ~~~~cqvag--c~--------~~~d~lD~~E~hY~~~h~~---sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dM 144 (253)
T KOG4173|consen 78 PAFACQVAG--CC--------QVFDALDDYEHHYHTLHGN---SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDM 144 (253)
T ss_pred ccccccccc--hH--------HHHhhhhhHHHhhhhcccc---hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccH
Confidence 456777644 22 2277777777787765553 69999999999999999985 13345
Q ss_pred eee---ccCcccCChhhHHHHHHHhCC
Q 046329 228 WFC---ICGSDFKHKRSLKDHVRSFGD 251 (280)
Q Consensus 228 ~~C---~C~k~F~~~~~L~~H~r~~h~ 251 (280)
|+| .|+-.|++...-..|+-..|.
T Consensus 145 y~ClvEgCt~KFkT~r~RkdH~I~~Hk 171 (253)
T KOG4173|consen 145 YQCLVEGCTEKFKTSRDRKDHMIRMHK 171 (253)
T ss_pred HHHHHHhhhhhhhhhhhhhhHHHHhcc
Confidence 999 599999999999999977675
No 69
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=87.87 E-value=0.31 Score=39.57 Aligned_cols=45 Identities=27% Similarity=0.615 Sum_probs=36.5
Q ss_pred eeCCCCCcccccchhhhHhhhc-cCcceee-ccCcccCChhhHHHHHHH
Q 046329 202 FGCRKCGKPFAVRGDWRTHEKN-CGKLWFC-ICGSDFKHKRSLKDHVRS 248 (280)
Q Consensus 202 ~~C~~C~k~F~~~~~L~~H~~~-~~k~~~C-~C~k~F~~~~~L~~H~r~ 248 (280)
|.|..||..... ..|-+|+.. ++..|.| .|++.|.. .....|..-
T Consensus 4 FtCnvCgEsvKK-p~vekH~srCrn~~fSCIDC~k~F~~-~sYknH~kC 50 (276)
T KOG2186|consen 4 FTCNVCGESVKK-PQVEKHMSRCRNAYFSCIDCGKTFER-VSYKNHTKC 50 (276)
T ss_pred Eehhhhhhhccc-cchHHHHHhccCCeeEEeeccccccc-chhhhhhhh
Confidence 889999998774 578889875 3688999 99999998 567778764
No 70
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=87.12 E-value=0.42 Score=29.53 Aligned_cols=8 Identities=50% Similarity=1.323 Sum_probs=4.2
Q ss_pred cccCCCcC
Q 046329 162 LPCYCCAE 169 (280)
Q Consensus 162 ~~C~~C~~ 169 (280)
|.|+.||+
T Consensus 28 F~CPnCGe 35 (61)
T COG2888 28 FPCPNCGE 35 (61)
T ss_pred eeCCCCCc
Confidence 45555553
No 71
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=86.84 E-value=0.27 Score=39.77 Aligned_cols=41 Identities=24% Similarity=0.500 Sum_probs=28.0
Q ss_pred CCCeeCCCCCcccccchhhhHhhhc------------cCcc-----eee-ccCcccCCh
Q 046329 199 AKPFGCRKCGKPFAVRGDWRTHEKN------------CGKL-----WFC-ICGSDFKHK 239 (280)
Q Consensus 199 ekp~~C~~C~k~F~~~~~L~~H~~~------------~~k~-----~~C-~C~k~F~~~ 239 (280)
+|.+.|++|++.|....-+....+. +-.| .+| .||.+|...
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 3567899999999887666655542 1122 479 999887654
No 72
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=86.73 E-value=0.25 Score=29.96 Aligned_cols=28 Identities=29% Similarity=0.656 Sum_probs=23.8
Q ss_pred HhhCCCCeeCCCCCcccccchhhhHhhh
Q 046329 195 RKHGAKPFGCRKCGKPFAVRGDWRTHEK 222 (280)
Q Consensus 195 ~h~~ekp~~C~~C~k~F~~~~~L~~H~~ 222 (280)
...||.-++|+-||..|.....+.+|..
T Consensus 11 ~RDGE~~lrCPRC~~~FR~~K~Y~RHVN 38 (65)
T COG4049 11 DRDGEEFLRCPRCGMVFRRRKDYIRHVN 38 (65)
T ss_pred ccCCceeeeCCchhHHHHHhHHHHHHhh
Confidence 3457888999999999999999999976
No 73
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=85.17 E-value=0.54 Score=43.01 Aligned_cols=24 Identities=25% Similarity=0.570 Sum_probs=19.3
Q ss_pred CCCeeCCCCCcccccchhhhHhhh
Q 046329 199 AKPFGCRKCGKPFAVRGDWRTHEK 222 (280)
Q Consensus 199 ekp~~C~~C~k~F~~~~~L~~H~~ 222 (280)
.+|-.|..||.+|........||-
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md 439 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMD 439 (579)
T ss_pred CCcchhcccccccccchhhhhHhh
Confidence 567889999999988877777664
No 74
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=84.20 E-value=0.46 Score=31.01 Aligned_cols=15 Identities=20% Similarity=0.629 Sum_probs=7.3
Q ss_pred CCeeCC--CCCcccccc
Q 046329 200 KPFGCR--KCGKPFAVR 214 (280)
Q Consensus 200 kp~~C~--~C~k~F~~~ 214 (280)
+-++|. .||.+|...
T Consensus 26 ~Y~qC~N~eCg~tF~t~ 42 (72)
T PRK09678 26 RYHQCQNVNCSATFITY 42 (72)
T ss_pred eeeecCCCCCCCEEEEE
Confidence 344554 455555443
No 75
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=84.19 E-value=1.2 Score=38.06 Aligned_cols=75 Identities=20% Similarity=0.412 Sum_probs=52.5
Q ss_pred ccccccccccccchHHHhHhhhCCCCCCCCccccccccccCCCccccCCCcCCccCCCCCCCCCCCCChHHHHHHHHHhh
Q 046329 118 SCPVCNKTFNRYNNMQMHMWGHGSQYRKGPESLRGTKAVSSMLRLPCYCCAEGCKNNIGHPRSRPLKDFRTLQTHYKRKH 197 (280)
Q Consensus 118 ~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~~~h~ 197 (280)
.|..|...|..-..|.+|++..+ -+|..|++.- .+....|++..+|.+|.+.-+
T Consensus 222 ~C~FC~~~FYdDDEL~~HcR~~H---------------------E~ChICD~v~-----p~~~QYFK~Y~~Le~HF~~~h 275 (493)
T COG5236 222 LCIFCKIYFYDDDELRRHCRLRH---------------------EACHICDMVG-----PIRYQYFKSYEDLEAHFRNAH 275 (493)
T ss_pred hhhhccceecChHHHHHHHHhhh---------------------hhhhhhhccC-----ccchhhhhCHHHHHHHhhcCc
Confidence 38999999999999999998643 2477776551 111223888889999887543
Q ss_pred CCCCeeCCC--CC----cccccchhhhHhhh
Q 046329 198 GAKPFGCRK--CG----KPFAVRGDWRTHEK 222 (280)
Q Consensus 198 ~ekp~~C~~--C~----k~F~~~~~L~~H~~ 222 (280)
|.|.+ |- .+|.....|..|+.
T Consensus 276 ----y~ct~qtc~~~k~~vf~~~~el~~h~~ 302 (493)
T COG5236 276 ----YCCTFQTCRVGKCYVFPYHTELLEHLT 302 (493)
T ss_pred ----eEEEEEEEecCcEEEeccHHHHHHHHH
Confidence 55543 22 47888888888875
No 76
>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=83.36 E-value=0.82 Score=25.03 Aligned_cols=9 Identities=11% Similarity=0.209 Sum_probs=4.6
Q ss_pred CccccCCCc
Q 046329 255 PHTVEFGRE 263 (280)
Q Consensus 255 ~~~C~~C~~ 263 (280)
|..|++|+.
T Consensus 18 p~~CP~Cg~ 26 (34)
T cd00729 18 PEKCPICGA 26 (34)
T ss_pred CCcCcCCCC
Confidence 445555554
No 77
>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=83.16 E-value=1 Score=31.99 Aligned_cols=32 Identities=13% Similarity=0.217 Sum_probs=26.1
Q ss_pred CCCcccccccccccccCCCCchhhccCCCcccccccccccccc
Q 046329 87 NPTPNDIVNKLVEGQYWIPSPEQILVGPTQFSCPVCNKTFNRY 129 (280)
Q Consensus 87 ~~~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~ 129 (280)
....|+.|++.|... +..|..|+.||..|...
T Consensus 8 tKR~Cp~CG~kFYDL-----------nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 8 TKRTCPSCGAKFYDL-----------NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred CcccCCCCcchhccC-----------CCCCccCCCCCCccCcc
Confidence 345799999999874 45788899999998776
No 78
>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=83.05 E-value=1.4 Score=25.67 Aligned_cols=25 Identities=32% Similarity=0.479 Sum_probs=12.0
Q ss_pred cceee-ccCcccCCh----hhHHHHHHHhC
Q 046329 226 KLWFC-ICGSDFKHK----RSLKDHVRSFG 250 (280)
Q Consensus 226 k~~~C-~C~k~F~~~----~~L~~H~r~~h 250 (280)
....| .|++.+... +.|.+|++..|
T Consensus 15 ~~a~C~~C~~~~~~~~~~ts~l~~HL~~~h 44 (45)
T PF02892_consen 15 KKAKCKYCGKVIKYSSGGTSNLKRHLKKKH 44 (45)
T ss_dssp S-EEETTTTEE-----SSTHHHHHHHHHTT
T ss_pred CeEEeCCCCeEEeeCCCcHHHHHHhhhhhC
Confidence 44556 666665553 56777775433
No 79
>PF15269 zf-C2H2_7: Zinc-finger
Probab=82.95 E-value=0.93 Score=26.17 Aligned_cols=24 Identities=29% Similarity=0.549 Sum_probs=19.1
Q ss_pred Ccc--eee-ccCcccCChhhHHHHHHH
Q 046329 225 GKL--WFC-ICGSDFKHKRSLKDHVRS 248 (280)
Q Consensus 225 ~k~--~~C-~C~k~F~~~~~L~~H~r~ 248 (280)
+|| |+| .|..+...++.|-.||+-
T Consensus 16 gkp~~ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 16 GKPFKYKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred CCCccceeecCCcccchHHHHHHHHHH
Confidence 444 678 888888888888888874
No 80
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=82.73 E-value=0.5 Score=28.68 Aligned_cols=31 Identities=23% Similarity=0.367 Sum_probs=25.6
Q ss_pred hccCCCccccccccccccccchHHHhHhhhC
Q 046329 110 ILVGPTQFSCPVCNKTFNRYNNMQMHMWGHG 140 (280)
Q Consensus 110 ~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~ 140 (280)
.-.|+..+.|+.|+..|.......+|...-+
T Consensus 11 ~RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH 41 (65)
T COG4049 11 DRDGEEFLRCPRCGMVFRRRKDYIRHVNKAH 41 (65)
T ss_pred ccCCceeeeCCchhHHHHHhHHHHHHhhHHh
Confidence 3457778899999999999999999986543
No 81
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=80.42 E-value=1.1 Score=30.17 Aligned_cols=31 Identities=29% Similarity=0.771 Sum_probs=21.2
Q ss_pred CCeeCCCCCcccccchhhhHhhhccCcceee-ccCcccCC
Q 046329 200 KPFGCRKCGKPFAVRGDWRTHEKNCGKLWFC-ICGSDFKH 238 (280)
Q Consensus 200 kp~~C~~C~k~F~~~~~L~~H~~~~~k~~~C-~C~k~F~~ 238 (280)
..|.|+.|++. .+.++....+.| .||..|.-
T Consensus 34 ~~~~Cp~C~~~--------~VkR~a~GIW~C~kCg~~fAG 65 (89)
T COG1997 34 AKHVCPFCGRT--------TVKRIATGIWKCRKCGAKFAG 65 (89)
T ss_pred cCCcCCCCCCc--------ceeeeccCeEEcCCCCCeecc
Confidence 46788888754 234556677888 88887754
No 82
>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=80.41 E-value=0.76 Score=35.21 Aligned_cols=36 Identities=11% Similarity=0.173 Sum_probs=23.4
Q ss_pred Ccceee-ccCcccCChhhHHHHHHHhCCCCCCccccCCCcccccccc
Q 046329 225 GKLWFC-ICGSDFKHKRSLKDHVRSFGDGHAPHTVEFGREVEEDEDE 270 (280)
Q Consensus 225 ~k~~~C-~C~k~F~~~~~L~~H~r~~h~~~~~~~C~~C~~~~~~~~~ 270 (280)
..-|.| .|+..|+.-.++. .-|.|+.||...+..|.
T Consensus 107 ~~~Y~Cp~c~~r~tf~eA~~----------~~F~Cp~Cg~~L~~~dn 143 (158)
T TIGR00373 107 NMFFICPNMCVRFTFNEAME----------LNFTCPRCGAMLDYLDN 143 (158)
T ss_pred CCeEECCCCCcEeeHHHHHH----------cCCcCCCCCCEeeeccC
Confidence 355777 7777777666663 25778888776655443
No 83
>PHA00626 hypothetical protein
Probab=80.38 E-value=0.54 Score=28.62 Aligned_cols=15 Identities=20% Similarity=0.470 Sum_probs=10.7
Q ss_pred CCeeCCCCCcccccc
Q 046329 200 KPFGCRKCGKPFAVR 214 (280)
Q Consensus 200 kp~~C~~C~k~F~~~ 214 (280)
..|+|+.||..|+..
T Consensus 22 nrYkCkdCGY~ft~~ 36 (59)
T PHA00626 22 DDYVCCDCGYNDSKD 36 (59)
T ss_pred cceEcCCCCCeechh
Confidence 458888888777753
No 84
>PF04606 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: IPR007684 This entry is represented by Bacteriophage P2, Ogr. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a viral family of phage zinc-binding transcriptional activators, which also contains cryptic members in some bacterial genomes []. The P4 phage delta protein contains two such domains attached covalently, while the P2 phage Ogr proteins possess one domain but function as dimers. All the members of this family have the following consensus sequence: C-X(2)-C-X(3)-A-(X)2-R-X(15)-C-X(4)-C-X(3)-F [].; GO: 0006355 regulation of transcription, DNA-dependent
Probab=79.95 E-value=0.76 Score=27.23 Aligned_cols=37 Identities=22% Similarity=0.467 Sum_probs=23.7
Q ss_pred eCCCCCcccccchhhhHhhhccCcceee---ccCcccCCh
Q 046329 203 GCRKCGKPFAVRGDWRTHEKNCGKLWFC---ICGSDFKHK 239 (280)
Q Consensus 203 ~C~~C~k~F~~~~~L~~H~~~~~k~~~C---~C~k~F~~~ 239 (280)
.|+.||....-......+..+.+..|+| .||.+|...
T Consensus 1 ~CP~Cg~~a~ir~S~~~s~~~~~~Y~qC~N~~Cg~tfv~~ 40 (47)
T PF04606_consen 1 RCPHCGSKARIRTSRQLSPLTRELYCQCTNPECGHTFVAN 40 (47)
T ss_pred CcCCCCCeeEEEEchhhCcceEEEEEEECCCcCCCEEEEE
Confidence 4778887665554444444455677888 488888643
No 85
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=79.93 E-value=1.2 Score=25.96 Aligned_cols=11 Identities=27% Similarity=0.893 Sum_probs=5.3
Q ss_pred eeCCCCCcccc
Q 046329 202 FGCRKCGKPFA 212 (280)
Q Consensus 202 ~~C~~C~k~F~ 212 (280)
|.|..||..|.
T Consensus 3 Y~C~~Cg~~~~ 13 (44)
T smart00659 3 YICGECGRENE 13 (44)
T ss_pred EECCCCCCEee
Confidence 44555554443
No 86
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=79.45 E-value=0.82 Score=35.79 Aligned_cols=36 Identities=19% Similarity=0.397 Sum_probs=23.9
Q ss_pred Ccceee-ccCcccCChhhHHHHHHHhCCCCCCccccCCCcccccccc
Q 046329 225 GKLWFC-ICGSDFKHKRSLKDHVRSFGDGHAPHTVEFGREVEEDEDE 270 (280)
Q Consensus 225 ~k~~~C-~C~k~F~~~~~L~~H~r~~h~~~~~~~C~~C~~~~~~~~~ 270 (280)
..-|.| .|+..|+.-.++. .-|.|+.||...+..|.
T Consensus 115 ~~~Y~Cp~C~~rytf~eA~~----------~~F~Cp~Cg~~L~~~dn 151 (178)
T PRK06266 115 NMFFFCPNCHIRFTFDEAME----------YGFRCPQCGEMLEEYDN 151 (178)
T ss_pred CCEEECCCCCcEEeHHHHhh----------cCCcCCCCCCCCeeccc
Confidence 356778 7877777666552 25888888876665443
No 87
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=79.23 E-value=1.9 Score=41.31 Aligned_cols=38 Identities=21% Similarity=0.460 Sum_probs=22.3
Q ss_pred eeCCCCCcccccchhhhHhhhccCcceee-ccCcccCChhhHHHHHHHhCCCCCCccccCCCc
Q 046329 202 FGCRKCGKPFAVRGDWRTHEKNCGKLWFC-ICGSDFKHKRSLKDHVRSFGDGHAPHTVEFGRE 263 (280)
Q Consensus 202 ~~C~~C~k~F~~~~~L~~H~~~~~k~~~C-~C~k~F~~~~~L~~H~r~~h~~~~~~~C~~C~~ 263 (280)
++|+.|+.. |.-|+.+ +...| .|| |....|..|+.||-
T Consensus 445 ~~Cp~Cd~~------lt~H~~~--~~L~CH~Cg----------------~~~~~p~~Cp~Cgs 483 (730)
T COG1198 445 AECPNCDSP------LTLHKAT--GQLRCHYCG----------------YQEPIPQSCPECGS 483 (730)
T ss_pred ccCCCCCcc------eEEecCC--CeeEeCCCC----------------CCCCCCCCCCCCCC
Confidence 456666543 3344442 55677 776 33456788888875
No 88
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=78.36 E-value=0.91 Score=34.53 Aligned_cols=43 Identities=9% Similarity=0.122 Sum_probs=25.2
Q ss_pred Cccccccccccccc---CCCCchhhccCCCccccccccccccccchHHH
Q 046329 89 TPNDIVNKLVEGQY---WIPSPEQILVGPTQFSCPVCNKTFNRYNNMQM 134 (280)
Q Consensus 89 ~~C~~c~~~~~~~~---~l~~h~~~h~~~~~~~C~~C~~~f~~~~~L~~ 134 (280)
+.|++|+..+.... .+.. ... ..+.+.|+.||++|.....+..
T Consensus 1 m~cp~c~~~~~~~~~s~~~~~--~~~-~~~~~~c~~c~~~f~~~e~~~~ 46 (154)
T PRK00464 1 MRCPFCGHPDTRVIDSRPAED--GNA-IRRRRECLACGKRFTTFERVEL 46 (154)
T ss_pred CcCCCCCCCCCEeEeccccCC--CCc-eeeeeeccccCCcceEeEeccC
Confidence 46999997553221 1111 111 1233889999999988766543
No 89
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=77.79 E-value=0.95 Score=34.43 Aligned_cols=15 Identities=33% Similarity=0.636 Sum_probs=9.0
Q ss_pred eeCCCCCcccccchh
Q 046329 202 FGCRKCGKPFAVRGD 216 (280)
Q Consensus 202 ~~C~~C~k~F~~~~~ 216 (280)
++|+.||++|.....
T Consensus 29 ~~c~~c~~~f~~~e~ 43 (154)
T PRK00464 29 RECLACGKRFTTFER 43 (154)
T ss_pred eeccccCCcceEeEe
Confidence 566666666665443
No 90
>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=77.72 E-value=1.4 Score=32.46 Aligned_cols=25 Identities=36% Similarity=0.727 Sum_probs=15.0
Q ss_pred cCcceee-ccCcccCChhhHHHHHHHhCC
Q 046329 224 CGKLWFC-ICGSDFKHKRSLKDHVRSFGD 251 (280)
Q Consensus 224 ~~k~~~C-~C~k~F~~~~~L~~H~r~~h~ 251 (280)
.+....| +||+.|+. |.+|++.||.
T Consensus 69 ~~d~i~clecGk~~k~---LkrHL~~~~g 94 (132)
T PF05443_consen 69 TPDYIICLECGKKFKT---LKRHLRTHHG 94 (132)
T ss_dssp -SS-EE-TBT--EESB---HHHHHHHTT-
T ss_pred ccCeeEEccCCcccch---HHHHHHHccC
Confidence 3456789 99999975 5999999543
No 91
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=77.33 E-value=1.3 Score=33.48 Aligned_cols=41 Identities=17% Similarity=0.220 Sum_probs=22.9
Q ss_pred Ccceee-ccCcccCChhhHHHHHHHhCCCCCCccccCCCcccccccc
Q 046329 225 GKLWFC-ICGSDFKHKRSLKDHVRSFGDGHAPHTVEFGREVEEDEDE 270 (280)
Q Consensus 225 ~k~~~C-~C~k~F~~~~~L~~H~r~~h~~~~~~~C~~C~~~~~~~~~ 270 (280)
..-|.| .|+..|.....+.. . .. ..-|.|+.||...+..|.
T Consensus 97 ~~~Y~Cp~C~~~y~~~ea~~~---~-d~-~~~f~Cp~Cg~~l~~~dn 138 (147)
T smart00531 97 NAYYKCPNCQSKYTFLEANQL---L-DM-DGTFTCPRCGEELEEDDN 138 (147)
T ss_pred CcEEECcCCCCEeeHHHHHHh---c-CC-CCcEECCCCCCEEEEcCc
Confidence 345777 77777764433221 0 11 223888888886665544
No 92
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=77.32 E-value=2.3 Score=25.49 Aligned_cols=20 Identities=30% Similarity=0.806 Sum_probs=11.8
Q ss_pred ee-ccCcccCCh-----hhHHHHHHH
Q 046329 229 FC-ICGSDFKHK-----RSLKDHVRS 248 (280)
Q Consensus 229 ~C-~C~k~F~~~-----~~L~~H~r~ 248 (280)
.| .|++.+... +.|.+|++.
T Consensus 20 ~C~~C~~~l~~~~~~gTs~L~rHl~~ 45 (50)
T smart00614 20 KCKYCGKKLSRSSKGGTSNLRRHLRR 45 (50)
T ss_pred EecCCCCEeeeCCCCCcHHHHHHHHh
Confidence 45 566655443 467777773
No 93
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=77.17 E-value=1.2 Score=34.17 Aligned_cols=12 Identities=42% Similarity=0.933 Sum_probs=9.3
Q ss_pred hCCCCeeCCCCC
Q 046329 197 HGAKPFGCRKCG 208 (280)
Q Consensus 197 ~~ekp~~C~~C~ 208 (280)
-|+-|-+|++||
T Consensus 145 ~ge~P~~CPiCg 156 (166)
T COG1592 145 EGEAPEVCPICG 156 (166)
T ss_pred cCCCCCcCCCCC
Confidence 467788888887
No 94
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=76.88 E-value=0.79 Score=36.06 Aligned_cols=25 Identities=24% Similarity=0.546 Sum_probs=17.9
Q ss_pred CCCCeeCC--CCCcccccchhhhHhhh
Q 046329 198 GAKPFGCR--KCGKPFAVRGDWRTHEK 222 (280)
Q Consensus 198 ~ekp~~C~--~C~k~F~~~~~L~~H~~ 222 (280)
|..-|.|- .|+..|.+....+.|+.
T Consensus 141 G~dMy~ClvEgCt~KFkT~r~RkdH~I 167 (253)
T KOG4173|consen 141 GQDMYQCLVEGCTEKFKTSRDRKDHMI 167 (253)
T ss_pred CccHHHHHHHhhhhhhhhhhhhhhHHH
Confidence 44557774 48888888777778876
No 95
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=76.70 E-value=1.3 Score=27.50 Aligned_cols=8 Identities=38% Similarity=0.912 Sum_probs=4.4
Q ss_pred cccCCCcC
Q 046329 162 LPCYCCAE 169 (280)
Q Consensus 162 ~~C~~C~~ 169 (280)
|.|+.||+
T Consensus 26 F~CPnCG~ 33 (59)
T PRK14890 26 FLCPNCGE 33 (59)
T ss_pred eeCCCCCC
Confidence 55555554
No 96
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=75.32 E-value=2.7 Score=23.27 Aligned_cols=10 Identities=20% Similarity=0.830 Sum_probs=4.3
Q ss_pred eCCCCCcccc
Q 046329 203 GCRKCGKPFA 212 (280)
Q Consensus 203 ~C~~C~k~F~ 212 (280)
.|+.|+..|.
T Consensus 4 ~Cp~C~~~y~ 13 (36)
T PF13717_consen 4 TCPNCQAKYE 13 (36)
T ss_pred ECCCCCCEEe
Confidence 3444444443
No 97
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=74.54 E-value=1.8 Score=25.86 Aligned_cols=9 Identities=33% Similarity=1.132 Sum_probs=4.8
Q ss_pred eee-ccCccc
Q 046329 228 WFC-ICGSDF 236 (280)
Q Consensus 228 ~~C-~C~k~F 236 (280)
|.| .||+.|
T Consensus 7 Y~C~~Cg~~~ 16 (49)
T COG1996 7 YKCARCGREV 16 (49)
T ss_pred EEhhhcCCee
Confidence 555 555555
No 98
>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=74.42 E-value=1.6 Score=25.11 Aligned_cols=11 Identities=36% Similarity=1.283 Sum_probs=5.5
Q ss_pred eeCCCCCcccc
Q 046329 202 FGCRKCGKPFA 212 (280)
Q Consensus 202 ~~C~~C~k~F~ 212 (280)
|+|..||..|.
T Consensus 6 y~C~~Cg~~fe 16 (42)
T PF09723_consen 6 YRCEECGHEFE 16 (42)
T ss_pred EEeCCCCCEEE
Confidence 44555554444
No 99
>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=74.27 E-value=10 Score=26.88 Aligned_cols=20 Identities=15% Similarity=0.514 Sum_probs=10.2
Q ss_pred cccccccccccccchHHHhHh
Q 046329 117 FSCPVCNKTFNRYNNMQMHMW 137 (280)
Q Consensus 117 ~~C~~C~~~f~~~~~L~~H~~ 137 (280)
..|..|+.+..- ..+..|++
T Consensus 12 lIC~~C~~av~~-~~v~~HL~ 31 (109)
T PF12013_consen 12 LICRQCQYAVQP-SEVESHLR 31 (109)
T ss_pred EEeCCCCcccCc-hHHHHHHH
Confidence 345555555444 44555554
No 100
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=74.06 E-value=2.4 Score=30.19 Aligned_cols=15 Identities=40% Similarity=0.959 Sum_probs=8.4
Q ss_pred CCeeCCCCCcccccc
Q 046329 200 KPFGCRKCGKPFAVR 214 (280)
Q Consensus 200 kp~~C~~C~k~F~~~ 214 (280)
.|-.|++||..|.-.
T Consensus 25 ~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 25 DPIVCPKCGTEFPPE 39 (108)
T ss_pred CCccCCCCCCccCcc
Confidence 455566666655543
No 101
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=73.26 E-value=2.5 Score=23.57 Aligned_cols=12 Identities=42% Similarity=1.079 Sum_probs=7.1
Q ss_pred CCeeCCCCCccc
Q 046329 200 KPFGCRKCGKPF 211 (280)
Q Consensus 200 kp~~C~~C~k~F 211 (280)
+..+|+.|+..|
T Consensus 24 ~~vrC~~C~~~f 35 (37)
T PF13719_consen 24 RKVRCPKCGHVF 35 (37)
T ss_pred cEEECCCCCcEe
Confidence 445666666555
No 102
>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=72.58 E-value=1.5 Score=24.76 Aligned_cols=8 Identities=25% Similarity=0.712 Sum_probs=3.4
Q ss_pred cccCCCcC
Q 046329 162 LPCYCCAE 169 (280)
Q Consensus 162 ~~C~~C~~ 169 (280)
|+|..||.
T Consensus 6 y~C~~Cg~ 13 (41)
T smart00834 6 YRCEDCGH 13 (41)
T ss_pred EEcCCCCC
Confidence 34444443
No 103
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=72.40 E-value=3.8 Score=35.58 Aligned_cols=23 Identities=26% Similarity=0.595 Sum_probs=18.7
Q ss_pred ccccCCCcCCccCCCCCCCCCCCCChHHHHHHHHH
Q 046329 161 RLPCYCCAEGCKNNIGHPRSRPLKDFRTLQTHYKR 195 (280)
Q Consensus 161 ~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~~~ 195 (280)
.|.|..|... |......+.|+++
T Consensus 3 ~ftC~tC~v~------------F~~ad~Qr~HyKS 25 (390)
T KOG2785|consen 3 GFTCNTCNVE------------FDDADEQRAHYKS 25 (390)
T ss_pred cceeeceeee------------eccHHHHHHHhhh
Confidence 4899999977 8887777888875
No 104
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=72.38 E-value=4 Score=30.83 Aligned_cols=37 Identities=14% Similarity=0.467 Sum_probs=24.8
Q ss_pred CCCCeeCCCCCcccccchhhhH-hhhccCcceee-ccCcccC
Q 046329 198 GAKPFGCRKCGKPFAVRGDWRT-HEKNCGKLWFC-ICGSDFK 237 (280)
Q Consensus 198 ~ekp~~C~~C~k~F~~~~~L~~-H~~~~~k~~~C-~C~k~F~ 237 (280)
+..-|.|+.|+..|.....+.. + . ...|.| .||....
T Consensus 96 ~~~~Y~Cp~C~~~y~~~ea~~~~d--~-~~~f~Cp~Cg~~l~ 134 (147)
T smart00531 96 NNAYYKCPNCQSKYTFLEANQLLD--M-DGTFTCPRCGEELE 134 (147)
T ss_pred CCcEEECcCCCCEeeHHHHHHhcC--C-CCcEECCCCCCEEE
Confidence 4456899999999886554432 2 1 333999 9997653
No 105
>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=71.95 E-value=2.2 Score=23.77 Aligned_cols=11 Identities=36% Similarity=0.990 Sum_probs=6.5
Q ss_pred CeeCCCCCccc
Q 046329 201 PFGCRKCGKPF 211 (280)
Q Consensus 201 p~~C~~C~k~F 211 (280)
...|+.|+..|
T Consensus 25 ~v~C~~C~~~~ 35 (38)
T TIGR02098 25 KVRCGKCGHVW 35 (38)
T ss_pred EEECCCCCCEE
Confidence 35666666555
No 106
>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=70.96 E-value=3.1 Score=30.21 Aligned_cols=35 Identities=6% Similarity=-0.040 Sum_probs=26.5
Q ss_pred CCCcccccccccccccCCCCchhhccCCCccccccccccccccchH
Q 046329 87 NPTPNDIVNKLVEGQYWIPSPEQILVGPTQFSCPVCNKTFNRYNNM 132 (280)
Q Consensus 87 ~~~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~L 132 (280)
....|+.|++.|... +..|..|+.||..|.....+
T Consensus 8 tKr~Cp~cg~kFYDL-----------nk~p~vcP~cg~~~~~~~~~ 42 (129)
T TIGR02300 8 TKRICPNTGSKFYDL-----------NRRPAVSPYTGEQFPPEEAL 42 (129)
T ss_pred ccccCCCcCcccccc-----------CCCCccCCCcCCccCcchhh
Confidence 345799999999863 45778899999988665333
No 107
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=70.86 E-value=2.1 Score=24.33 Aligned_cols=34 Identities=24% Similarity=0.679 Sum_probs=17.5
Q ss_pred eeCCCCCcccccchhhhHhhhcc-C---cceee-ccCcccC
Q 046329 202 FGCRKCGKPFAVRGDWRTHEKNC-G---KLWFC-ICGSDFK 237 (280)
Q Consensus 202 ~~C~~C~k~F~~~~~L~~H~~~~-~---k~~~C-~C~k~F~ 237 (280)
+.|+.|+..=... +...++.. + .-|.| .|++.|.
T Consensus 1 ~~Cp~C~~~~a~~--~q~Q~RsaDE~mT~fy~C~~C~~~w~ 39 (40)
T smart00440 1 APCPKCGNREATF--FQLQTRSADEPMTVFYVCTKCGHRWR 39 (40)
T ss_pred CcCCCCCCCeEEE--EEEcccCCCCCCeEEEEeCCCCCEeC
Confidence 3577777432222 12223322 2 34788 8887764
No 108
>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=68.72 E-value=2 Score=25.84 Aligned_cols=9 Identities=22% Similarity=0.763 Sum_probs=4.7
Q ss_pred cccCCCcCC
Q 046329 162 LPCYCCAEG 170 (280)
Q Consensus 162 ~~C~~C~~~ 170 (280)
|+|..||..
T Consensus 6 y~C~~Cg~~ 14 (52)
T TIGR02605 6 YRCTACGHR 14 (52)
T ss_pred EEeCCCCCE
Confidence 555555544
No 109
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=68.59 E-value=2.3 Score=34.39 Aligned_cols=44 Identities=11% Similarity=0.206 Sum_probs=29.8
Q ss_pred CCCCcccccccccccccCCCCchhhc----------cCCCc-----ccccccccccccc
Q 046329 86 SNPTPNDIVNKLVEGQYWIPSPEQIL----------VGPTQ-----FSCPVCNKTFNRY 129 (280)
Q Consensus 86 ~~~~~C~~c~~~~~~~~~l~~h~~~h----------~~~~~-----~~C~~C~~~f~~~ 129 (280)
.+.+.|+.|++.|....-+....++- .+-.| ..|+.||.+|...
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 35678999999999876655554421 12223 4599999987644
No 110
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=66.40 E-value=13 Score=32.50 Aligned_cols=31 Identities=23% Similarity=0.553 Sum_probs=24.1
Q ss_pred cceee-ccC---cccCChhhHHHHHHHhCCCCCCc
Q 046329 226 KLWFC-ICG---SDFKHKRSLKDHVRSFGDGHAPH 256 (280)
Q Consensus 226 k~~~C-~C~---k~F~~~~~L~~H~r~~h~~~~~~ 256 (280)
.-|.| .|. +.|.+....+.||.....-.-+|
T Consensus 216 ~~~~CL~CN~~~~~f~sleavr~HM~~K~HCkl~y 250 (390)
T KOG2785|consen 216 IGFICLFCNELGRPFSSLEAVRAHMRDKGHCKLPY 250 (390)
T ss_pred cCceEEEeccccCcccccHHHHHHHhhccCcccCC
Confidence 45788 898 99999999999998764444444
No 111
>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=66.31 E-value=9.5 Score=27.04 Aligned_cols=24 Identities=25% Similarity=0.546 Sum_probs=20.5
Q ss_pred eee-----ccCcccCChhhHHHHHHHhCC
Q 046329 228 WFC-----ICGSDFKHKRSLKDHVRSFGD 251 (280)
Q Consensus 228 ~~C-----~C~k~F~~~~~L~~H~r~~h~ 251 (280)
|.| .|+..+.+...+..|++.+|.
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 667 499999999999999999763
No 112
>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=64.71 E-value=6.7 Score=30.03 Aligned_cols=33 Identities=18% Similarity=0.334 Sum_probs=24.6
Q ss_pred hCCCCeeCCCCCcccccchhhhHhhhccCcceee-ccCccc
Q 046329 197 HGAKPFGCRKCGKPFAVRGDWRTHEKNCGKLWFC-ICGSDF 236 (280)
Q Consensus 197 ~~ekp~~C~~C~k~F~~~~~L~~H~~~~~k~~~C-~C~k~F 236 (280)
.+..-|.|+.|+..|+....+. .-|.| .||...
T Consensus 105 ~~~~~Y~Cp~c~~r~tf~eA~~-------~~F~Cp~Cg~~L 138 (158)
T TIGR00373 105 TNNMFFICPNMCVRFTFNEAME-------LNFTCPRCGAML 138 (158)
T ss_pred cCCCeEECCCCCcEeeHHHHHH-------cCCcCCCCCCEe
Confidence 4456688988998888877764 36888 888764
No 113
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=64.62 E-value=3.6 Score=24.13 Aligned_cols=12 Identities=25% Similarity=0.581 Sum_probs=6.7
Q ss_pred CeeCCCCCcccc
Q 046329 201 PFGCRKCGKPFA 212 (280)
Q Consensus 201 p~~C~~C~k~F~ 212 (280)
.+.|+.||..+.
T Consensus 21 ~~~Cp~CG~~~~ 32 (46)
T PRK00398 21 GVRCPYCGYRIL 32 (46)
T ss_pred ceECCCCCCeEE
Confidence 456666665443
No 114
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=64.56 E-value=7.1 Score=27.88 Aligned_cols=101 Identities=15% Similarity=0.167 Sum_probs=54.8
Q ss_pred CcccccccccccccCCCCchhhccCCCccccccccccccccchHHHhHh--hhCCCCCCCCccccccccccCCCccccCC
Q 046329 89 TPNDIVNKLVEGQYWIPSPEQILVGPTQFSCPVCNKTFNRYNNMQMHMW--GHGSQYRKGPESLRGTKAVSSMLRLPCYC 166 (280)
Q Consensus 89 ~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~--~h~~~~~~~~~~~~~~~~~~~~~~~~C~~ 166 (280)
|.|+.|+..+-. -|..|++|+-+.....+|.+-.. .--..+...... .......|.-
T Consensus 2 Y~CPrC~skvC~--------------LP~~CpiCgLtLVss~HLARSyHHLfPl~~f~ev~~~-------~~~~~~~C~~ 60 (112)
T TIGR00622 2 YFCPQCRAKVCE--------------LPVECPICGLTLILSTHLARSYHHLFPLKAFQEIPLE-------EYNGSRFCFG 60 (112)
T ss_pred ccCCCCCCCccC--------------CCCcCCcCCCEEeccchHHHhhhccCCCccccccccc-------ccCCCCcccC
Confidence 567777665542 46779999999888888876421 001111110000 0111234888
Q ss_pred CcCCccCCCCCCCCCCCCChHHHHHHHHHhhCCCCeeCCCCCcccccchhhhHhhhcc
Q 046329 167 CAEGCKNNIGHPRSRPLKDFRTLQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEKNC 224 (280)
Q Consensus 167 C~~~~~~~~~~~~~k~f~~~~~L~~H~~~h~~ekp~~C~~C~k~F~~~~~L~~H~~~~ 224 (280)
|... |........ ..-.....|+|..|...|-..-.+-.|...|
T Consensus 61 C~~~------------f~~~~~~~~--~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh 104 (112)
T TIGR00622 61 CQGP------------FPKPPVSPF--DELKDSHRYVCAVCKNVFCVDCDVFVHESLH 104 (112)
T ss_pred cCCC------------CCCcccccc--cccccccceeCCCCCCccccccchhhhhhcc
Confidence 8766 433211000 0012334699999999998877777765433
No 115
>PF12907 zf-met2: Zinc-binding
Probab=62.10 E-value=4.6 Score=23.00 Aligned_cols=31 Identities=23% Similarity=0.450 Sum_probs=21.2
Q ss_pred eee-ccCcccC---ChhhHHHHHHHhCCCCCCccc
Q 046329 228 WFC-ICGSDFK---HKRSLKDHVRSFGDGHAPHTV 258 (280)
Q Consensus 228 ~~C-~C~k~F~---~~~~L~~H~r~~h~~~~~~~C 258 (280)
++| +|-.+|. +...|..|....|....+-.|
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHpK~~~~~C 36 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHPKNTFEEC 36 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCCCCCHHHc
Confidence 568 8886554 345699999888877654444
No 116
>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=61.18 E-value=6.7 Score=21.12 Aligned_cols=10 Identities=20% Similarity=0.494 Sum_probs=7.0
Q ss_pred CccccCCCcC
Q 046329 160 LRLPCYCCAE 169 (280)
Q Consensus 160 ~~~~C~~C~~ 169 (280)
.+.+|..||.
T Consensus 16 ~~irC~~CG~ 25 (32)
T PF03604_consen 16 DPIRCPECGH 25 (32)
T ss_dssp STSSBSSSS-
T ss_pred CcEECCcCCC
Confidence 4468999984
No 117
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=61.10 E-value=5.8 Score=29.07 Aligned_cols=24 Identities=33% Similarity=0.491 Sum_probs=18.3
Q ss_pred Ccceee-ccCcccCChhhHHHHHHHhCC
Q 046329 225 GKLWFC-ICGSDFKHKRSLKDHVRSFGD 251 (280)
Q Consensus 225 ~k~~~C-~C~k~F~~~~~L~~H~r~~h~ 251 (280)
.-...| ++||.|+ +|++|+.+||.
T Consensus 74 pD~IicLEDGkkfK---SLKRHL~t~~g 98 (148)
T COG4957 74 PDYIICLEDGKKFK---SLKRHLTTHYG 98 (148)
T ss_pred CCeEEEeccCcchH---HHHHHHhcccC
Confidence 345689 9999995 58999999543
No 118
>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=60.66 E-value=6.3 Score=20.03 Aligned_cols=19 Identities=16% Similarity=0.268 Sum_probs=11.1
Q ss_pred eCCCCCcccccchhhhHhhh
Q 046329 203 GCRKCGKPFAVRGDWRTHEK 222 (280)
Q Consensus 203 ~C~~C~k~F~~~~~L~~H~~ 222 (280)
.|++|++.+ ....+..|+.
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 466676666 3455556653
No 119
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=59.00 E-value=8.2 Score=30.20 Aligned_cols=34 Identities=21% Similarity=0.425 Sum_probs=24.6
Q ss_pred CCCCeeCCCCCcccccchhhhHhhhccCcceee-ccCcccCC
Q 046329 198 GAKPFGCRKCGKPFAVRGDWRTHEKNCGKLWFC-ICGSDFKH 238 (280)
Q Consensus 198 ~ekp~~C~~C~k~F~~~~~L~~H~~~~~k~~~C-~C~k~F~~ 238 (280)
...-|.|+.|+..|+....+. .-|.| .||.....
T Consensus 114 ~~~~Y~Cp~C~~rytf~eA~~-------~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 114 NNMFFFCPNCHIRFTFDEAME-------YGFRCPQCGEMLEE 148 (178)
T ss_pred CCCEEECCCCCcEEeHHHHhh-------cCCcCCCCCCCCee
Confidence 345688999998888776653 36889 89876443
No 120
>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=58.66 E-value=8.2 Score=31.14 Aligned_cols=28 Identities=25% Similarity=0.549 Sum_probs=21.2
Q ss_pred cCcceee-ccCcccCChhhHHHHHHHhCC
Q 046329 224 CGKLWFC-ICGSDFKHKRSLKDHVRSFGD 251 (280)
Q Consensus 224 ~~k~~~C-~C~k~F~~~~~L~~H~r~~h~ 251 (280)
.+..|.| .|+|.|+-..-.+.|+...|.
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHHH-H
T ss_pred cCCEECCCCCCcccCChHHHHHHHhhcCH
Confidence 3456888 899999988888889888775
No 121
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=58.27 E-value=5.7 Score=28.54 Aligned_cols=26 Identities=27% Similarity=0.658 Sum_probs=20.1
Q ss_pred cCcceee-ccCcccCChhhHHHHHHHh
Q 046329 224 CGKLWFC-ICGSDFKHKRSLKDHVRSF 249 (280)
Q Consensus 224 ~~k~~~C-~C~k~F~~~~~L~~H~r~~ 249 (280)
|.-.|.| .|.+-|.+...|..|.++.
T Consensus 54 G~GqfyCi~CaRyFi~~~~l~~H~ktK 80 (129)
T KOG3408|consen 54 GGGQFYCIECARYFIDAKALKTHFKTK 80 (129)
T ss_pred CCceeehhhhhhhhcchHHHHHHHhcc
Confidence 3455788 8888888888888888764
No 122
>KOG2272 consensus Focal adhesion protein PINCH-1, contains LIM domains [Signal transduction mechanisms; Cytoskeleton]
Probab=58.27 E-value=24 Score=29.01 Aligned_cols=74 Identities=18% Similarity=0.276 Sum_probs=39.4
Q ss_pred HhhCCCCeeCCCCCcccccchhhhHhhh----------ccCcceee---ccCcccCChhhHHHHHHHhCCCCCCccccCC
Q 046329 195 RKHGAKPFGCRKCGKPFAVRGDWRTHEK----------NCGKLWFC---ICGSDFKHKRSLKDHVRSFGDGHAPHTVEFG 261 (280)
Q Consensus 195 ~h~~ekp~~C~~C~k~F~~~~~L~~H~~----------~~~k~~~C---~C~k~F~~~~~L~~H~r~~h~~~~~~~C~~C 261 (280)
.|.-..-|.|..|.+.|.....+.+--. .+.--|.| ++|-.| +.|..=. -..-|.|..|
T Consensus 215 KhWHveHFvCa~CekPFlGHrHYEkkGlaYCe~h~~qLfG~~CF~C~~~i~G~vv---~al~Kaw-----Cv~cf~Cs~C 286 (332)
T KOG2272|consen 215 KHWHVEHFVCAKCEKPFLGHRHYEKKGLAYCETHYHQLFGNLCFICNRVIGGDVV---SALNKAW-----CVECFSCSTC 286 (332)
T ss_pred cccchhheeehhcCCcccchhhhhhcCchhHHHHHHHHhhhhheecCCccCccHH---HHhhhhh-----cccccccccc
Confidence 3333455899999999876533322110 12223444 233222 1222221 1235899999
Q ss_pred CccccccccCCCCCc
Q 046329 262 REVEEDEDEDNDFDE 276 (280)
Q Consensus 262 ~~~~~~~~~~~~~~~ 276 (280)
++...-++...|.|.
T Consensus 287 dkkl~~K~Kf~E~Dm 301 (332)
T KOG2272|consen 287 DKKLTQKNKFYEFDM 301 (332)
T ss_pred ccccccccceeeecc
Confidence 998777776666553
No 123
>PF14353 CpXC: CpXC protein
Probab=57.94 E-value=1.7 Score=31.90 Aligned_cols=51 Identities=24% Similarity=0.354 Sum_probs=33.2
Q ss_pred CcccccccccccccCCCCc--------hhhccC-CCccccccccccccccchHHHhHhhh
Q 046329 89 TPNDIVNKLVEGQYWIPSP--------EQILVG-PTQFSCPVCNKTFNRYNNMQMHMWGH 139 (280)
Q Consensus 89 ~~C~~c~~~~~~~~~l~~h--------~~~h~~-~~~~~C~~C~~~f~~~~~L~~H~~~h 139 (280)
..|+.|+..|....+.... .++..| -..|.|+.||..|.-...+..|-..+
T Consensus 2 itCP~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~~~p~lY~D~~~ 61 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCPSCGHKFRLEYPLLYHDPEK 61 (128)
T ss_pred cCCCCCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCceecCCCEEEEcCCC
Confidence 4799999988765442211 112222 23588999999998877777775443
No 124
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=57.13 E-value=4 Score=36.10 Aligned_cols=40 Identities=18% Similarity=0.458 Sum_probs=27.5
Q ss_pred ccCCCccccccccccccccchHHHhHhhhCCCCCCCCccccccccccCCCccccCCCcCC
Q 046329 111 LVGPTQFSCPVCNKTFNRYNNMQMHMWGHGSQYRKGPESLRGTKAVSSMLRLPCYCCAEG 170 (280)
Q Consensus 111 h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~ 170 (280)
-+....|.|+.|.+.|.....+..-- .....|.|..|+--
T Consensus 123 ~t~~~~Y~Cp~C~kkyt~Lea~~L~~--------------------~~~~~F~C~~C~ge 162 (436)
T KOG2593|consen 123 DTNVAGYVCPNCQKKYTSLEALQLLD--------------------NETGEFHCENCGGE 162 (436)
T ss_pred ccccccccCCccccchhhhHHHHhhc--------------------ccCceEEEecCCCc
Confidence 34456799999999999877654321 11245889999754
No 125
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=55.94 E-value=1.2 Score=39.11 Aligned_cols=42 Identities=19% Similarity=0.267 Sum_probs=23.7
Q ss_pred CcccccccccccccCCCCchhhccCCCccccccccccccccc
Q 046329 89 TPNDIVNKLVEGQYWIPSPEQILVGPTQFSCPVCNKTFNRYN 130 (280)
Q Consensus 89 ~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~ 130 (280)
-.|..|++.......--.-|...--..-|+|..|++.+.-+.
T Consensus 275 ~iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq~ 316 (468)
T KOG1701|consen 275 GICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQS 316 (468)
T ss_pred hhhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhcccc
Confidence 379999998776543222221111123478888887655443
No 126
>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=55.71 E-value=5.1 Score=20.00 Aligned_cols=9 Identities=11% Similarity=-0.105 Sum_probs=5.5
Q ss_pred CccccCCCc
Q 046329 255 PHTVEFGRE 263 (280)
Q Consensus 255 ~~~C~~C~~ 263 (280)
.|.|+.||+
T Consensus 16 ~f~CPnCG~ 24 (24)
T PF07754_consen 16 PFPCPNCGF 24 (24)
T ss_pred eEeCCCCCC
Confidence 466666664
No 127
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=54.80 E-value=9 Score=22.90 Aligned_cols=15 Identities=33% Similarity=0.957 Sum_probs=8.6
Q ss_pred CCeeCCCCCcccccc
Q 046329 200 KPFGCRKCGKPFAVR 214 (280)
Q Consensus 200 kp~~C~~C~k~F~~~ 214 (280)
+.+.|..||..|...
T Consensus 3 k~l~C~dCg~~FvfT 17 (49)
T PF13451_consen 3 KTLTCKDCGAEFVFT 17 (49)
T ss_pred eeEEcccCCCeEEEe
Confidence 455666666665543
No 128
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=54.71 E-value=4.2 Score=29.80 Aligned_cols=24 Identities=17% Similarity=0.257 Sum_probs=17.1
Q ss_pred HHHHHHHHHhhCCCCeeCCCCCcccccch
Q 046329 187 RTLQTHYKRKHGAKPFGCRKCGKPFAVRG 215 (280)
Q Consensus 187 ~~L~~H~~~h~~ekp~~C~~C~k~F~~~~ 215 (280)
..|+.|-.+|. +|+.|..+|...+
T Consensus 112 a~LWK~~~~yp-----vCPvCkTSFKss~ 135 (140)
T PF05290_consen 112 ANLWKFCNLYP-----VCPVCKTSFKSSS 135 (140)
T ss_pred HHHHHHcccCC-----CCCcccccccccc
Confidence 56777766554 6888888887654
No 129
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=54.62 E-value=20 Score=20.90 Aligned_cols=26 Identities=23% Similarity=0.606 Sum_probs=14.9
Q ss_pred eeCCCCCcccccchhhhHhhhccCcceee-ccCc
Q 046329 202 FGCRKCGKPFAVRGDWRTHEKNCGKLWFC-ICGS 234 (280)
Q Consensus 202 ~~C~~C~k~F~~~~~L~~H~~~~~k~~~C-~C~k 234 (280)
+.|+.||.. ....|. ....|.| .|++
T Consensus 19 ~~CP~Cg~~--~~~~~~-----~~~~~~C~~C~~ 45 (46)
T PF12760_consen 19 FVCPHCGST--KHYRLK-----TRGRYRCKACRK 45 (46)
T ss_pred CCCCCCCCe--eeEEeC-----CCCeEECCCCCC
Confidence 678888854 111111 1567788 7765
No 130
>PRK04023 DNA polymerase II large subunit; Validated
Probab=54.11 E-value=16 Score=36.20 Aligned_cols=9 Identities=11% Similarity=-0.141 Sum_probs=5.9
Q ss_pred ccccCCCcc
Q 046329 256 HTVEFGREV 264 (280)
Q Consensus 256 ~~C~~C~~~ 264 (280)
+.|+.||..
T Consensus 664 y~CPKCG~E 672 (1121)
T PRK04023 664 DECEKCGRE 672 (1121)
T ss_pred CcCCCCCCC
Confidence 567777763
No 131
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=53.68 E-value=6.6 Score=29.55 Aligned_cols=31 Identities=29% Similarity=0.844 Sum_probs=14.7
Q ss_pred CCeeCCCCCcccccchhhhHhhhc-cCcceee-ccCc
Q 046329 200 KPFGCRKCGKPFAVRGDWRTHEKN-CGKLWFC-ICGS 234 (280)
Q Consensus 200 kp~~C~~C~k~F~~~~~L~~H~~~-~~k~~~C-~C~k 234 (280)
-+|.|. |+..|.+. ++|-.. .++.|.| .|+-
T Consensus 116 ~~Y~C~-C~q~~l~~---RRhn~~~~g~~YrC~~C~g 148 (156)
T COG3091 116 YPYRCQ-CQQHYLRI---RRHNTVRRGEVYRCGKCGG 148 (156)
T ss_pred eeEEee-cCCccchh---hhcccccccceEEeccCCc
Confidence 356666 66655432 233221 1225666 6653
No 132
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=53.03 E-value=3.6 Score=38.83 Aligned_cols=26 Identities=31% Similarity=0.589 Sum_probs=23.4
Q ss_pred CCccccccccccccccchHHHhHhhh
Q 046329 114 PTQFSCPVCNKTFNRYNNMQMHMWGH 139 (280)
Q Consensus 114 ~~~~~C~~C~~~f~~~~~L~~H~~~h 139 (280)
...|.|..|+|.|.....++.||+.|
T Consensus 790 ~giFpCreC~kvF~KiKSrNAHMK~H 815 (907)
T KOG4167|consen 790 TGIFPCRECGKVFFKIKSRNAHMKTH 815 (907)
T ss_pred CceeehHHHHHHHHHHhhhhHHHHHH
Confidence 34588999999999999999999998
No 133
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=52.83 E-value=4.5 Score=38.19 Aligned_cols=34 Identities=6% Similarity=-0.158 Sum_probs=28.2
Q ss_pred CCCCCCCCCcccccccccccccCCCCchhhccCC
Q 046329 81 AAGSTSNPTPNDIVNKLVEGQYWIPSPEQILVGP 114 (280)
Q Consensus 81 ~~~~~~~~~~C~~c~~~~~~~~~l~~h~~~h~~~ 114 (280)
........|.|..|++.|.....+..||++|.-.
T Consensus 785 ~~~~~~giFpCreC~kvF~KiKSrNAHMK~Hr~q 818 (907)
T KOG4167|consen 785 GETDPTGIFPCRECGKVFFKIKSRNAHMKTHRQQ 818 (907)
T ss_pred CCCCCCceeehHHHHHHHHHHhhhhHHHHHHHHH
Confidence 3344566799999999999999999999998753
No 134
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=52.71 E-value=15 Score=32.57 Aligned_cols=35 Identities=20% Similarity=0.481 Sum_probs=20.4
Q ss_pred CCCeeCCCCCcccccchhhhHhhhccCcceee-ccCc
Q 046329 199 AKPFGCRKCGKPFAVRGDWRTHEKNCGKLWFC-ICGS 234 (280)
Q Consensus 199 ekp~~C~~C~k~F~~~~~L~~H~~~~~k~~~C-~C~k 234 (280)
..-|.|+.|.+.|+....+.-= -...-.|.| .|+-
T Consensus 126 ~~~Y~Cp~C~kkyt~Lea~~L~-~~~~~~F~C~~C~g 161 (436)
T KOG2593|consen 126 VAGYVCPNCQKKYTSLEALQLL-DNETGEFHCENCGG 161 (436)
T ss_pred cccccCCccccchhhhHHHHhh-cccCceEEEecCCC
Confidence 4457788888777766554421 112345777 7763
No 135
>PRK04023 DNA polymerase II large subunit; Validated
Probab=50.78 E-value=17 Score=36.12 Aligned_cols=9 Identities=44% Similarity=1.110 Sum_probs=5.1
Q ss_pred ccccccccc
Q 046329 117 FSCPVCNKT 125 (280)
Q Consensus 117 ~~C~~C~~~ 125 (280)
..|+.||..
T Consensus 627 RfCpsCG~~ 635 (1121)
T PRK04023 627 RKCPSCGKE 635 (1121)
T ss_pred ccCCCCCCc
Confidence 446666654
No 136
>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=50.03 E-value=9.3 Score=26.09 Aligned_cols=30 Identities=30% Similarity=0.827 Sum_probs=18.1
Q ss_pred CCeeCCCCCcccccchhhhHhhhccCcceee-ccCcccC
Q 046329 200 KPFGCRKCGKPFAVRGDWRTHEKNCGKLWFC-ICGSDFK 237 (280)
Q Consensus 200 kp~~C~~C~k~F~~~~~L~~H~~~~~k~~~C-~C~k~F~ 237 (280)
..|.|+.||+.-.. +...-.+.| .|++.|.
T Consensus 34 ~ky~Cp~Cgk~~vk--------R~a~GIW~C~~C~~~~A 64 (90)
T PF01780_consen 34 AKYTCPFCGKTSVK--------RVATGIWKCKKCGKKFA 64 (90)
T ss_dssp S-BEESSSSSSEEE--------EEETTEEEETTTTEEEE
T ss_pred CCCcCCCCCCceeE--------EeeeEEeecCCCCCEEe
Confidence 45788888765221 233455788 8887774
No 137
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=49.97 E-value=8 Score=26.41 Aligned_cols=10 Identities=50% Similarity=1.637 Sum_probs=4.8
Q ss_pred ceee-ccCccc
Q 046329 227 LWFC-ICGSDF 236 (280)
Q Consensus 227 ~~~C-~C~k~F 236 (280)
.+.| .|++.|
T Consensus 54 IW~C~~C~~~~ 64 (90)
T PRK03976 54 IWECRKCGAKF 64 (90)
T ss_pred EEEcCCCCCEE
Confidence 4444 455444
No 138
>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=49.07 E-value=8.5 Score=31.04 Aligned_cols=24 Identities=29% Similarity=0.408 Sum_probs=19.6
Q ss_pred CCCeeCCCCCcccccchhhhHhhh
Q 046329 199 AKPFGCRKCGKPFAVRGDWRTHEK 222 (280)
Q Consensus 199 ekp~~C~~C~k~F~~~~~L~~H~~ 222 (280)
+..|.|..|+|.|.-...+.+|+.
T Consensus 75 ~~K~~C~lc~KlFkg~eFV~KHI~ 98 (214)
T PF04959_consen 75 EDKWRCPLCGKLFKGPEFVRKHIF 98 (214)
T ss_dssp SEEEEE-SSS-EESSHHHHHHHHH
T ss_pred CCEECCCCCCcccCChHHHHHHHh
Confidence 445999999999999999999987
No 139
>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=48.97 E-value=9.8 Score=19.35 Aligned_cols=10 Identities=40% Similarity=0.943 Sum_probs=6.9
Q ss_pred eCCCCCcccc
Q 046329 203 GCRKCGKPFA 212 (280)
Q Consensus 203 ~C~~C~k~F~ 212 (280)
.|+.||..|.
T Consensus 16 ~Cp~CG~~F~ 25 (26)
T PF10571_consen 16 FCPHCGYDFE 25 (26)
T ss_pred cCCCCCCCCc
Confidence 5777777764
No 140
>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=48.18 E-value=3.3 Score=22.98 Aligned_cols=19 Identities=21% Similarity=0.693 Sum_probs=12.5
Q ss_pred HHHHHHHhhCCCCeeCCCC
Q 046329 189 LQTHYKRKHGAKPFGCRKC 207 (280)
Q Consensus 189 L~~H~~~h~~ekp~~C~~C 207 (280)
+.+|-+...|...|.|..|
T Consensus 17 v~k~G~~~~G~qryrC~~C 35 (36)
T PF03811_consen 17 VKKNGKSPSGHQRYRCKDC 35 (36)
T ss_pred ceeCCCCCCCCEeEecCcC
Confidence 5556566666667777776
No 141
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=47.63 E-value=34 Score=29.30 Aligned_cols=24 Identities=17% Similarity=0.192 Sum_probs=18.9
Q ss_pred Ccceee-ccCcccCChhhHHHHHHH
Q 046329 225 GKLWFC-ICGSDFKHKRSLKDHVRS 248 (280)
Q Consensus 225 ~k~~~C-~C~k~F~~~~~L~~H~r~ 248 (280)
...|.| .|...|-.--+.-.|...
T Consensus 343 ~~~y~C~~Ck~~FCldCDv~iHesL 367 (378)
T KOG2807|consen 343 SGRYRCESCKNVFCLDCDVFIHESL 367 (378)
T ss_pred CCcEEchhccceeeccchHHHHhhh
Confidence 346888 888888888777788777
No 142
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=47.52 E-value=7.3 Score=30.59 Aligned_cols=16 Identities=31% Similarity=0.671 Sum_probs=12.5
Q ss_pred CCCeeCCCCCcccccc
Q 046329 199 AKPFGCRKCGKPFAVR 214 (280)
Q Consensus 199 ekp~~C~~C~k~F~~~ 214 (280)
.-||.|.+|.+.|..+
T Consensus 194 ~IPF~C~iCKkdy~sp 209 (259)
T COG5152 194 KIPFLCGICKKDYESP 209 (259)
T ss_pred CCceeehhchhhccch
Confidence 3579999998888765
No 143
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=47.35 E-value=23 Score=36.14 Aligned_cols=10 Identities=30% Similarity=1.188 Sum_probs=6.1
Q ss_pred ceee-ccCccc
Q 046329 227 LWFC-ICGSDF 236 (280)
Q Consensus 227 ~~~C-~C~k~F 236 (280)
.|.| .||...
T Consensus 692 vy~CPsCGaev 702 (1337)
T PRK14714 692 VYVCPDCGAEV 702 (1337)
T ss_pred ceeCccCCCcc
Confidence 4667 676653
No 144
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=46.75 E-value=12 Score=25.58 Aligned_cols=30 Identities=23% Similarity=0.638 Sum_probs=15.8
Q ss_pred CCeeCCCCCcccccchhhhHhhhccCcceee-ccCcccC
Q 046329 200 KPFGCRKCGKPFAVRGDWRTHEKNCGKLWFC-ICGSDFK 237 (280)
Q Consensus 200 kp~~C~~C~k~F~~~~~L~~H~~~~~k~~~C-~C~k~F~ 237 (280)
..|.|+.|++.-. . +...-.+.| .|++.|.
T Consensus 35 a~y~CpfCgk~~v-----k---R~a~GIW~C~~C~~~~A 65 (90)
T PTZ00255 35 AKYFCPFCGKHAV-----K---RQAVGIWRCKGCKKTVA 65 (90)
T ss_pred CCccCCCCCCCce-----e---eeeeEEEEcCCCCCEEe
Confidence 3566777764311 1 123355666 6776664
No 145
>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=46.68 E-value=11 Score=24.06 Aligned_cols=13 Identities=31% Similarity=0.945 Sum_probs=5.3
Q ss_pred CCeeCCCCCcccc
Q 046329 200 KPFGCRKCGKPFA 212 (280)
Q Consensus 200 kp~~C~~C~k~F~ 212 (280)
+.+.|..||..|-
T Consensus 24 rrhhCr~CG~~vC 36 (69)
T PF01363_consen 24 RRHHCRNCGRVVC 36 (69)
T ss_dssp -EEE-TTT--EEE
T ss_pred eeEccCCCCCEEC
Confidence 4466666666553
No 146
>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=45.96 E-value=8.3 Score=20.03 Aligned_cols=18 Identities=28% Similarity=0.831 Sum_probs=7.6
Q ss_pred eCCCCCcccccchhhhHhh
Q 046329 203 GCRKCGKPFAVRGDWRTHE 221 (280)
Q Consensus 203 ~C~~C~k~F~~~~~L~~H~ 221 (280)
.|-.|++.|. ....+.|.
T Consensus 2 sCiDC~~~F~-~~~y~~Ht 19 (28)
T PF08790_consen 2 SCIDCSKDFD-GDSYKSHT 19 (28)
T ss_dssp EETTTTEEEE-GGGTTT--
T ss_pred eeecCCCCcC-cCCcCCCC
Confidence 4555555552 33444443
No 147
>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=45.45 E-value=14 Score=19.55 Aligned_cols=9 Identities=33% Similarity=1.180 Sum_probs=1.4
Q ss_pred CCCCCcccc
Q 046329 204 CRKCGKPFA 212 (280)
Q Consensus 204 C~~C~k~F~ 212 (280)
|+.|+..+.
T Consensus 5 Cp~C~se~~ 13 (30)
T PF08274_consen 5 CPLCGSEYT 13 (30)
T ss_dssp -TTT-----
T ss_pred CCCCCCcce
Confidence 444444433
No 148
>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=45.15 E-value=12 Score=25.59 Aligned_cols=30 Identities=30% Similarity=0.882 Sum_probs=15.8
Q ss_pred CCeeCCCCCcccccchhhhHhhhccCcceee-ccCcccC
Q 046329 200 KPFGCRKCGKPFAVRGDWRTHEKNCGKLWFC-ICGSDFK 237 (280)
Q Consensus 200 kp~~C~~C~k~F~~~~~L~~H~~~~~k~~~C-~C~k~F~ 237 (280)
..|.|+.|++.-. .+..--.+.| .|++.|.
T Consensus 34 a~y~CpfCgk~~v--------kR~a~GIW~C~~C~~~~A 64 (91)
T TIGR00280 34 AKYVCPFCGKKTV--------KRGSTGIWTCRKCGAKFA 64 (91)
T ss_pred cCccCCCCCCCce--------EEEeeEEEEcCCCCCEEe
Confidence 3466777764311 1233445666 6776664
No 149
>PRK14873 primosome assembly protein PriA; Provisional
Probab=43.77 E-value=12 Score=35.82 Aligned_cols=8 Identities=50% Similarity=1.087 Sum_probs=3.7
Q ss_pred CeeCCCCC
Q 046329 201 PFGCRKCG 208 (280)
Q Consensus 201 p~~C~~C~ 208 (280)
...|..||
T Consensus 410 ~l~Ch~CG 417 (665)
T PRK14873 410 TPRCRWCG 417 (665)
T ss_pred eeECCCCc
Confidence 34454444
No 150
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=43.75 E-value=32 Score=21.19 Aligned_cols=44 Identities=11% Similarity=0.114 Sum_probs=25.0
Q ss_pred eeCCCCCcccccchhhhHhhhccCcceee-ccCcccCChhhHHHHHHHhCCCCCCccccCCCcccc
Q 046329 202 FGCRKCGKPFAVRGDWRTHEKNCGKLWFC-ICGSDFKHKRSLKDHVRSFGDGHAPHTVEFGREVEE 266 (280)
Q Consensus 202 ~~C~~C~k~F~~~~~L~~H~~~~~k~~~C-~C~k~F~~~~~L~~H~r~~h~~~~~~~C~~C~~~~~ 266 (280)
|.|++|+..+... .. .||..|... .+..+++. ...|++|++.+.
T Consensus 2 ~~Cpi~~~~~~~P--------------v~~~~G~v~~~~-~i~~~~~~------~~~cP~~~~~~~ 46 (63)
T smart00504 2 FLCPISLEVMKDP--------------VILPSGQTYERR-AIEKWLLS------HGTDPVTGQPLT 46 (63)
T ss_pred cCCcCCCCcCCCC--------------EECCCCCEEeHH-HHHHHHHH------CCCCCCCcCCCC
Confidence 4577777666543 11 366666443 45555554 136788877663
No 151
>TIGR00244 transcriptional regulator NrdR. Members of this almost entirely bacterial family contain an ATP cone domain (PFAM:PF03477). There is never more than one member per genome. Common gene symbols given include nrdR, ybaD, ribX and ytcG. The member from Streptomyces coelicolor is found upstream in the operon of the class II oxygen-independent ribonucleotide reductase gene nrdJ and was shown to repress nrdJ expression. Many members of this family are found near genes for riboflavin biosynthesis in Gram-negative bacteria, suggesting a role in that pathway. However, a phylogenetic profiling study associates members of this family with the presence of a palindromic signal with consensus acaCwAtATaTwGtgt, termed the NrdR-box, an upstream element for most operons for ribonucleotide reductase of all three classes in bacterial genomes.
Probab=42.47 E-value=13 Score=27.88 Aligned_cols=44 Identities=9% Similarity=0.049 Sum_probs=23.2
Q ss_pred cccccccccccccCCCCchhhccCCCccccccccccccccchHH
Q 046329 90 PNDIVNKLVEGQYWIPSPEQILVGPTQFSCPVCNKTFNRYNNMQ 133 (280)
Q Consensus 90 ~C~~c~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~L~ 133 (280)
.|++|+..-+....-..-.....-.+.-.|..|++.|++...+.
T Consensus 2 ~CP~C~~~dtkViDSR~~~dg~~IRRRReC~~C~~RFTTyErve 45 (147)
T TIGR00244 2 HCPFCQHHNTRVLDSRLVEDGQSIRRRRECLECHERFTTFERAE 45 (147)
T ss_pred CCCCCCCCCCEeeeccccCCCCeeeecccCCccCCccceeeecc
Confidence 58888774433222111111111123456999999998766543
No 152
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=41.06 E-value=24 Score=34.17 Aligned_cols=11 Identities=18% Similarity=0.531 Sum_probs=6.1
Q ss_pred CccccCCCcCC
Q 046329 160 LRLPCYCCAEG 170 (280)
Q Consensus 160 ~~~~C~~C~~~ 170 (280)
.+..|+.||..
T Consensus 474 ~p~~Cp~Cgs~ 484 (730)
T COG1198 474 IPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCC
Confidence 44566666543
No 153
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=40.65 E-value=15 Score=27.68 Aligned_cols=42 Identities=10% Similarity=0.060 Sum_probs=21.9
Q ss_pred cccccccccccccCCCCchhhccCCCccccccccccccccch
Q 046329 90 PNDIVNKLVEGQYWIPSPEQILVGPTQFSCPVCNKTFNRYNN 131 (280)
Q Consensus 90 ~C~~c~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~ 131 (280)
.|++|+..-+....-..-.-...-.+.-.|..|+..|.+-..
T Consensus 2 ~CPfC~~~~tkViDSR~~edg~aIRRRReC~~C~~RFTTfE~ 43 (156)
T COG1327 2 KCPFCGHEDTKVIDSRPAEEGNAIRRRRECLECGERFTTFER 43 (156)
T ss_pred CCCCCCCCCCeeeecccccccchhhhhhcccccccccchhhe
Confidence 577777654443221111111122344568888888877544
No 154
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=40.43 E-value=17 Score=21.83 Aligned_cols=12 Identities=33% Similarity=0.769 Sum_probs=7.3
Q ss_pred CCeeCCCCCccc
Q 046329 200 KPFGCRKCGKPF 211 (280)
Q Consensus 200 kp~~C~~C~k~F 211 (280)
..+.|..||..+
T Consensus 36 ~r~~C~~Cgyt~ 47 (50)
T PRK00432 36 DRWHCGKCGYTE 47 (50)
T ss_pred CcEECCCcCCEE
Confidence 356677776554
No 155
>PF04641 Rtf2: Rtf2 RING-finger
Probab=40.21 E-value=35 Score=28.46 Aligned_cols=53 Identities=25% Similarity=0.386 Sum_probs=34.7
Q ss_pred CCCCeeCCCCCcccccchhhhHhhhccCcceee--ccCcccCChhhHHHHHHHhCCCCCCccccCCCccccccc
Q 046329 198 GAKPFGCRKCGKPFAVRGDWRTHEKNCGKLWFC--ICGSDFKHKRSLKDHVRSFGDGHAPHTVEFGREVEEDED 269 (280)
Q Consensus 198 ~ekp~~C~~C~k~F~~~~~L~~H~~~~~k~~~C--~C~k~F~~~~~L~~H~r~~h~~~~~~~C~~C~~~~~~~~ 269 (280)
..-+|.|++.++.|.. ...|++ .||-.|.... |. -++ +--.|++|++.|...|
T Consensus 110 ~~~~~~CPvt~~~~~~-----------~~~fv~l~~cG~V~s~~a-lk-e~k------~~~~Cp~c~~~f~~~D 164 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNG-----------KHKFVYLRPCGCVFSEKA-LK-ELK------KSKKCPVCGKPFTEED 164 (260)
T ss_pred CCceeECCCCCcccCC-----------ceeEEEEcCCCCEeeHHH-HH-hhc------ccccccccCCccccCC
Confidence 4567999999888743 235666 5888887663 21 111 1234999999998543
No 156
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=40.19 E-value=15 Score=24.98 Aligned_cols=7 Identities=57% Similarity=1.507 Sum_probs=2.6
Q ss_pred CCCCCcc
Q 046329 204 CRKCGKP 210 (280)
Q Consensus 204 C~~C~k~ 210 (280)
|..||..
T Consensus 61 CkkCGfe 67 (97)
T COG3357 61 CKKCGFE 67 (97)
T ss_pred hcccCcc
Confidence 3333333
No 157
>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=40.10 E-value=6.5 Score=22.17 Aligned_cols=11 Identities=18% Similarity=0.715 Sum_probs=8.2
Q ss_pred ccccccccccc
Q 046329 116 QFSCPVCNKTF 126 (280)
Q Consensus 116 ~~~C~~C~~~f 126 (280)
-|.|..|+..|
T Consensus 28 fy~C~~C~~~w 38 (39)
T PF01096_consen 28 FYVCCNCGHRW 38 (39)
T ss_dssp EEEESSSTEEE
T ss_pred EEEeCCCCCee
Confidence 37788888765
No 158
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=40.04 E-value=10 Score=31.90 Aligned_cols=15 Identities=40% Similarity=0.669 Sum_probs=12.5
Q ss_pred CCeeCCCCCcccccc
Q 046329 200 KPFGCRKCGKPFAVR 214 (280)
Q Consensus 200 kp~~C~~C~k~F~~~ 214 (280)
-||.|.+|.+.|...
T Consensus 240 ~Pf~c~icr~~f~~p 254 (313)
T KOG1813|consen 240 LPFKCFICRKYFYRP 254 (313)
T ss_pred CCccccccccccccc
Confidence 489999999888765
No 159
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=39.07 E-value=15 Score=22.42 Aligned_cols=15 Identities=13% Similarity=0.080 Sum_probs=11.5
Q ss_pred ccccCCCcccccccc
Q 046329 256 HTVEFGREVEEDEDE 270 (280)
Q Consensus 256 ~~C~~C~~~~~~~~~ 270 (280)
.+|.+||+.|.+.|+
T Consensus 6 ~~C~~Cg~~~~~~dD 20 (54)
T PF14446_consen 6 CKCPVCGKKFKDGDD 20 (54)
T ss_pred ccChhhCCcccCCCC
Confidence 579999999876554
No 160
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=39.02 E-value=18 Score=20.40 Aligned_cols=14 Identities=43% Similarity=1.006 Sum_probs=11.6
Q ss_pred CeeCCCCCcccccc
Q 046329 201 PFGCRKCGKPFAVR 214 (280)
Q Consensus 201 p~~C~~C~k~F~~~ 214 (280)
||.|..|++.|-..
T Consensus 12 ~f~C~~C~~~FC~~ 25 (39)
T smart00154 12 GFKCRHCGNLFCGE 25 (39)
T ss_pred CeECCccCCccccc
Confidence 78999999988754
No 161
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=38.01 E-value=16 Score=21.81 Aligned_cols=10 Identities=40% Similarity=1.099 Sum_probs=7.4
Q ss_pred CeeCCCCCcc
Q 046329 201 PFGCRKCGKP 210 (280)
Q Consensus 201 p~~C~~C~k~ 210 (280)
.+.|..||.+
T Consensus 37 R~~CGkCgyT 46 (51)
T COG1998 37 RWACGKCGYT 46 (51)
T ss_pred eeEeccccce
Confidence 5788888765
No 162
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=37.90 E-value=6.9 Score=33.59 Aligned_cols=48 Identities=27% Similarity=0.635 Sum_probs=34.9
Q ss_pred CCCeeCCC--CCcccccchhhhHhhhc---------------------cCcceee-ccCcccCChhhHHHHH
Q 046329 199 AKPFGCRK--CGKPFAVRGDWRTHEKN---------------------CGKLWFC-ICGSDFKHKRSLKDHV 246 (280)
Q Consensus 199 ekp~~C~~--C~k~F~~~~~L~~H~~~---------------------~~k~~~C-~C~k~F~~~~~L~~H~ 246 (280)
.++|+|.+ |.+.+.....|+.|..+ ..|+|.| +|.++++..-.|.-|.
T Consensus 347 ~~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~~ 418 (442)
T KOG4124|consen 347 DKPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLKYHR 418 (442)
T ss_pred cCCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCCcee
Confidence 57899965 99999988888877641 1367888 8888887766555443
No 163
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=37.78 E-value=17 Score=23.77 Aligned_cols=11 Identities=36% Similarity=1.256 Sum_probs=6.7
Q ss_pred eeCCCCCcccc
Q 046329 202 FGCRKCGKPFA 212 (280)
Q Consensus 202 ~~C~~C~k~F~ 212 (280)
|+|..|+..|.
T Consensus 13 Y~c~~cg~~~d 23 (82)
T COG2331 13 YECTECGNRFD 23 (82)
T ss_pred EeecccchHHH
Confidence 66777765543
No 164
>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=37.31 E-value=21 Score=21.64 Aligned_cols=12 Identities=42% Similarity=1.118 Sum_probs=6.0
Q ss_pred CeeCCCCCcccc
Q 046329 201 PFGCRKCGKPFA 212 (280)
Q Consensus 201 p~~C~~C~k~F~ 212 (280)
.+.|..||+.|-
T Consensus 18 k~~Cr~Cg~~~C 29 (57)
T cd00065 18 RHHCRNCGRIFC 29 (57)
T ss_pred ccccCcCcCCcC
Confidence 345555555543
No 165
>PHA02998 RNA polymerase subunit; Provisional
Probab=37.10 E-value=16 Score=28.34 Aligned_cols=34 Identities=18% Similarity=0.363 Sum_probs=17.2
Q ss_pred eeCCCCCcccccchhhhHhhhccC----cceee-ccCcccC
Q 046329 202 FGCRKCGKPFAVRGDWRTHEKNCG----KLWFC-ICGSDFK 237 (280)
Q Consensus 202 ~~C~~C~k~F~~~~~L~~H~~~~~----k~~~C-~C~k~F~ 237 (280)
-.|+.|+..=.. .+....|... .-|.| .||+.|.
T Consensus 144 v~CPkCg~~~A~--f~qlQTRSADEPmT~FYkC~~CG~~wk 182 (195)
T PHA02998 144 TPCPNCKSKNTT--PMMIQTRAADEPPLVRHACRDCKKHFK 182 (195)
T ss_pred CCCCCCCCCceE--EEEEeeccCCCCceEEEEcCCCCCccC
Confidence 467777643222 2222334332 33677 7777764
No 166
>PRK05978 hypothetical protein; Provisional
Probab=36.84 E-value=14 Score=27.89 Aligned_cols=32 Identities=31% Similarity=0.730 Sum_probs=20.6
Q ss_pred cccCCCcCCccCCCCCCCCCCCCChHHHHHHHHHhhCCCCeeCCCCCcccccc
Q 046329 162 LPCYCCAEGCKNNIGHPRSRPLKDFRTLQTHYKRKHGAKPFGCRKCGKPFAVR 214 (280)
Q Consensus 162 ~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~~~h~~ekp~~C~~C~k~F~~~ 214 (280)
-+|+.||++ +-|... |+ -.-.|+.||..|...
T Consensus 34 grCP~CG~G----------~LF~g~--Lk---------v~~~C~~CG~~~~~~ 65 (148)
T PRK05978 34 GRCPACGEG----------KLFRAF--LK---------PVDHCAACGEDFTHH 65 (148)
T ss_pred CcCCCCCCC----------cccccc--cc---------cCCCccccCCccccC
Confidence 479999987 445422 11 123699999888654
No 167
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=36.53 E-value=18 Score=34.42 Aligned_cols=46 Identities=15% Similarity=0.141 Sum_probs=27.3
Q ss_pred cccccccccccccCCCCchhhccCCCccccccccccccccchHHHh
Q 046329 90 PNDIVNKLVEGQYWIPSPEQILVGPTQFSCPVCNKTFNRYNNMQMH 135 (280)
Q Consensus 90 ~C~~c~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~L~~H 135 (280)
.|..||..|+-...|..-....+-..---|+.|.+.|....+-+-|
T Consensus 125 ~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfH 170 (750)
T COG0068 125 NCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFH 170 (750)
T ss_pred ccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCccccccc
Confidence 4778888777776665543322222222488888877766664444
No 168
>COG1779 C4-type Zn-finger protein [General function prediction only]
Probab=36.22 E-value=13 Score=29.44 Aligned_cols=12 Identities=25% Similarity=0.476 Sum_probs=7.0
Q ss_pred eee-ccCcccCCh
Q 046329 228 WFC-ICGSDFKHK 239 (280)
Q Consensus 228 ~~C-~C~k~F~~~ 239 (280)
+.| .||+.+..-
T Consensus 44 ~~C~~CgYR~~DV 56 (201)
T COG1779 44 GVCERCGYRSTDV 56 (201)
T ss_pred EEccccCCcccce
Confidence 456 677666543
No 169
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=35.88 E-value=49 Score=28.15 Aligned_cols=46 Identities=22% Similarity=0.331 Sum_probs=31.9
Q ss_pred eCCCCCcccccchhhhHhhhccCcceee-ccCcccCChhhHHHHHHH
Q 046329 203 GCRKCGKPFAVRGDWRTHEKNCGKLWFC-ICGSDFKHKRSLKDHVRS 248 (280)
Q Consensus 203 ~C~~C~k~F~~~~~L~~H~~~~~k~~~C-~C~k~F~~~~~L~~H~r~ 248 (280)
.|-.|--.|.....-..-..+-.-.|.| .|...|-.--..-.|...
T Consensus 364 ~Cf~CQ~~fp~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe~L 410 (421)
T COG5151 364 HCFVCQGPFPKPPVSPFDESTSSGRYQCELCKSTFCSDCDVFIHETL 410 (421)
T ss_pred cceeccCCCCCCCCCcccccccccceechhhhhhhhhhhHHHHHHHH
Confidence 4777877776543322111234567999 999999998888888887
No 170
>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=35.21 E-value=17 Score=19.85 Aligned_cols=9 Identities=33% Similarity=0.774 Sum_probs=3.0
Q ss_pred ccCcccCCh
Q 046329 231 ICGSDFKHK 239 (280)
Q Consensus 231 ~C~k~F~~~ 239 (280)
.|++.|..+
T Consensus 8 eC~~~f~dS 16 (34)
T PF01286_consen 8 ECGKPFMDS 16 (34)
T ss_dssp TT--EES-S
T ss_pred HhCCHHHHH
Confidence 555555444
No 171
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=35.00 E-value=15 Score=25.52 Aligned_cols=10 Identities=40% Similarity=0.996 Sum_probs=6.0
Q ss_pred eee-ccCcccC
Q 046329 228 WFC-ICGSDFK 237 (280)
Q Consensus 228 ~~C-~C~k~F~ 237 (280)
..| .||.+|.
T Consensus 47 ~~Cg~CGls~e 57 (104)
T COG4888 47 AVCGNCGLSFE 57 (104)
T ss_pred EEcccCcceEE
Confidence 456 6666654
No 172
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=34.73 E-value=18 Score=26.05 Aligned_cols=25 Identities=28% Similarity=0.477 Sum_probs=21.4
Q ss_pred CCCeeCCCCCcccccchhhhHhhhc
Q 046329 199 AKPFGCRKCGKPFAVRGDWRTHEKN 223 (280)
Q Consensus 199 ekp~~C~~C~k~F~~~~~L~~H~~~ 223 (280)
--.|-|-.|.+-|.....|..|.++
T Consensus 55 ~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 55 GGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CceeehhhhhhhhcchHHHHHHHhc
Confidence 3458999999999999999999874
No 173
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=34.72 E-value=22 Score=20.39 Aligned_cols=16 Identities=31% Similarity=0.831 Sum_probs=11.7
Q ss_pred ccccccccccccchHH
Q 046329 118 SCPVCNKTFNRYNNMQ 133 (280)
Q Consensus 118 ~C~~C~~~f~~~~~L~ 133 (280)
.|..|++.|.-.....
T Consensus 10 ~C~~C~rpf~WRKKW~ 25 (42)
T PF10013_consen 10 ICPVCGRPFTWRKKWA 25 (42)
T ss_pred cCcccCCcchHHHHHH
Confidence 3999999997655443
No 174
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=34.51 E-value=29 Score=31.03 Aligned_cols=18 Identities=33% Similarity=0.676 Sum_probs=12.4
Q ss_pred CCCCeeCCCCCcccccch
Q 046329 198 GAKPFGCRKCGKPFAVRG 215 (280)
Q Consensus 198 ~ekp~~C~~C~k~F~~~~ 215 (280)
|..-|+|+.||+.+....
T Consensus 364 G~~g~rC~kCg~~~~~~~ 381 (421)
T COG1571 364 GRNGFRCKKCGTRARETL 381 (421)
T ss_pred CCCCcccccccccCCccc
Confidence 444788888888776543
No 175
>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=34.38 E-value=36 Score=25.81 Aligned_cols=26 Identities=12% Similarity=0.012 Sum_probs=9.6
Q ss_pred ChhhHHHHHH-HhCC----------CCCCccccCCCc
Q 046329 238 HKRSLKDHVR-SFGD----------GHAPHTVEFGRE 263 (280)
Q Consensus 238 ~~~~L~~H~r-~~h~----------~~~~~~C~~C~~ 263 (280)
..+.+..|+. ++|. |+...+|-.||-
T Consensus 32 s~SHIv~HLv~srh~ev~LH~~s~lgdt~leCy~Cg~ 68 (152)
T PF09416_consen 32 SGSHIVNHLVRSRHKEVSLHPDSPLGDTVLECYNCGS 68 (152)
T ss_dssp SS-HHHHHHHHHT---EEE-TTSTT-S-B---TTT--
T ss_pred cccHHHHHHHHccCCceeeCCCCCCCCcEEEEEecCC
Confidence 4566777763 3333 334578888876
No 176
>KOG4377 consensus Zn-finger protein [General function prediction only]
Probab=34.37 E-value=35 Score=30.20 Aligned_cols=22 Identities=18% Similarity=0.489 Sum_probs=19.2
Q ss_pred eee---ccCcccCChhhHHHHHHHh
Q 046329 228 WFC---ICGSDFKHKRSLKDHVRSF 249 (280)
Q Consensus 228 ~~C---~C~k~F~~~~~L~~H~r~~ 249 (280)
|.| .|+..|.+.+.+..|.|.|
T Consensus 402 fhc~r~Gc~~tl~s~sqm~shkrkh 426 (480)
T KOG4377|consen 402 FHCDRLGCEATLYSVSQMASHKRKH 426 (480)
T ss_pred eeecccCCceEEEehhhhhhhhhhh
Confidence 567 5999999999999999985
No 177
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=33.87 E-value=24 Score=25.32 Aligned_cols=12 Identities=17% Similarity=0.401 Sum_probs=7.2
Q ss_pred ceee-ccCcccCC
Q 046329 227 LWFC-ICGSDFKH 238 (280)
Q Consensus 227 ~~~C-~C~k~F~~ 238 (280)
.+.| .||..|..
T Consensus 70 ~~~C~~Cg~~~~~ 82 (113)
T PRK12380 70 QAWCWDCSQVVEI 82 (113)
T ss_pred EEEcccCCCEEec
Confidence 3567 77766643
No 178
>PF09963 DUF2197: Uncharacterized protein conserved in bacteria (DUF2197); InterPro: IPR019241 This family represents various hypothetical bacterial proteins with no known function.
Probab=33.84 E-value=24 Score=21.77 Aligned_cols=10 Identities=30% Similarity=0.541 Sum_probs=5.5
Q ss_pred eCCCCCcccc
Q 046329 203 GCRKCGKPFA 212 (280)
Q Consensus 203 ~C~~C~k~F~ 212 (280)
+|-+|++.+.
T Consensus 4 kC~lCdk~~~ 13 (56)
T PF09963_consen 4 KCILCDKKEE 13 (56)
T ss_pred EEEecCCEEE
Confidence 4555665554
No 179
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=33.52 E-value=34 Score=25.74 Aligned_cols=48 Identities=10% Similarity=-0.000 Sum_probs=29.1
Q ss_pred CCcccccccccccccCCCCc----hh-hccCCCccccccccccccccchHHHh
Q 046329 88 PTPNDIVNKLVEGQYWIPSP----EQ-ILVGPTQFSCPVCNKTFNRYNNMQMH 135 (280)
Q Consensus 88 ~~~C~~c~~~~~~~~~l~~h----~~-~h~~~~~~~C~~C~~~f~~~~~L~~H 135 (280)
...|..||..+.....-..- .. ......-+.|+.|++.|..-+++.+-
T Consensus 91 ~sRC~~CN~~L~~v~~~~v~~~vp~~v~~~~~~f~~C~~C~kiyW~GsH~~~~ 143 (147)
T PF01927_consen 91 FSRCPKCNGPLRPVSKEEVKDRVPPYVYETYDEFWRCPGCGKIYWEGSHWRRM 143 (147)
T ss_pred CCccCCCCcEeeechhhccccccCccccccCCeEEECCCCCCEecccccHHHH
Confidence 35799999976554321111 11 11223468899999999877666543
No 180
>PLN02294 cytochrome c oxidase subunit Vb
Probab=33.48 E-value=30 Score=26.69 Aligned_cols=12 Identities=0% Similarity=-0.166 Sum_probs=6.1
Q ss_pred CCccccCCCccc
Q 046329 254 APHTVEFGREVE 265 (280)
Q Consensus 254 ~~~~C~~C~~~~ 265 (280)
+|++|+.||..|
T Consensus 140 kp~RCpeCG~~f 151 (174)
T PLN02294 140 KSFECPVCTQYF 151 (174)
T ss_pred CceeCCCCCCEE
Confidence 355555555533
No 181
>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 COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.25 E-value=35 Score=24.10 Aligned_cols=28 Identities=11% Similarity=0.099 Sum_probs=22.1
Q ss_pred CcccccccccccccCCCCchhhccCCCcccccccccccc
Q 046329 89 TPNDIVNKLVEGQYWIPSPEQILVGPTQFSCPVCNKTFN 127 (280)
Q Consensus 89 ~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~ 127 (280)
-.|+.|++.|-.. +..|..|+.||+.|.
T Consensus 10 ridPetg~KFYDL-----------NrdPiVsPytG~s~P 37 (129)
T COG4530 10 RIDPETGKKFYDL-----------NRDPIVSPYTGKSYP 37 (129)
T ss_pred ccCccccchhhcc-----------CCCccccCcccccch
Confidence 3688899888763 457888999999983
No 183
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=33.08 E-value=25 Score=26.36 Aligned_cols=9 Identities=33% Similarity=1.221 Sum_probs=3.9
Q ss_pred eeCCCCCcc
Q 046329 202 FGCRKCGKP 210 (280)
Q Consensus 202 ~~C~~C~k~ 210 (280)
|.|..|+..
T Consensus 113 y~C~~C~~~ 121 (146)
T smart00731 113 YRCTGCGQR 121 (146)
T ss_pred EECCCCCCC
Confidence 444444433
No 184
>PRK01343 zinc-binding protein; Provisional
Probab=32.48 E-value=39 Score=20.91 Aligned_cols=11 Identities=45% Similarity=1.020 Sum_probs=6.2
Q ss_pred eeCCCCCcccc
Q 046329 202 FGCRKCGKPFA 212 (280)
Q Consensus 202 ~~C~~C~k~F~ 212 (280)
..|++|++.|.
T Consensus 10 ~~CP~C~k~~~ 20 (57)
T PRK01343 10 RPCPECGKPST 20 (57)
T ss_pred CcCCCCCCcCc
Confidence 34666666554
No 185
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=32.25 E-value=2.3e+02 Score=21.75 Aligned_cols=53 Identities=21% Similarity=0.242 Sum_probs=32.6
Q ss_pred CeeCCCCC-cccccchh--hhHhhhccCcceee---ccCcccCChhhHHHHHHHhCCCCCCc
Q 046329 201 PFGCRKCG-KPFAVRGD--WRTHEKNCGKLWFC---ICGSDFKHKRSLKDHVRSFGDGHAPH 256 (280)
Q Consensus 201 p~~C~~C~-k~F~~~~~--L~~H~~~~~k~~~C---~C~k~F~~~~~L~~H~r~~h~~~~~~ 256 (280)
...|+.|- ..+.+... -+++ ...|+..| .|.+. .+...|++|.|..|...+|-
T Consensus 80 ~L~CPLCRG~V~GWtvve~AR~~--LN~K~RsC~~e~C~F~-GtY~eLrKHar~~HP~~rP~ 138 (162)
T PF07800_consen 80 ELACPLCRGEVKGWTVVEPARRF--LNAKKRSCSQESCSFS-GTYSELRKHARSEHPSARPS 138 (162)
T ss_pred cccCccccCceeceEEchHHHHH--hccCCccCcccccccc-cCHHHHHHHHHhhCCCCCCc
Confidence 36788874 33333211 1222 24677888 36544 34568999999999988874
No 186
>COG1773 Rubredoxin [Energy production and conversion]
Probab=32.00 E-value=29 Score=21.29 Aligned_cols=14 Identities=14% Similarity=-0.021 Sum_probs=8.1
Q ss_pred CccccCCCcccccc
Q 046329 255 PHTVEFGREVEEDE 268 (280)
Q Consensus 255 ~~~C~~C~~~~~~~ 268 (280)
.|+|.+||-+++.+
T Consensus 3 ~~~C~~CG~vYd~e 16 (55)
T COG1773 3 RWRCSVCGYVYDPE 16 (55)
T ss_pred ceEecCCceEeccc
Confidence 35666666665543
No 187
>KOG3507 consensus DNA-directed RNA polymerase, subunit RPB7.0 [Transcription]
Probab=31.53 E-value=18 Score=22.32 Aligned_cols=16 Identities=25% Similarity=0.690 Sum_probs=11.1
Q ss_pred CCCeeCCCCCcccccc
Q 046329 199 AKPFGCRKCGKPFAVR 214 (280)
Q Consensus 199 ekp~~C~~C~k~F~~~ 214 (280)
...++|..||....++
T Consensus 35 ~D~irCReCG~RIlyK 50 (62)
T KOG3507|consen 35 GDVIRCRECGYRILYK 50 (62)
T ss_pred CCcEehhhcchHHHHH
Confidence 3568888888765544
No 188
>PF10263 SprT-like: SprT-like family; InterPro: IPR006640 This is a family of uncharacterised bacterial proteins which includes Escherichia coli SprT (P39902 from SWISSPROT). SprT is described as a regulator of bolA gene in stationary phase []. The majority of members contain the metallopeptidase zinc binding signature which has a HExxH motif, however there is no evidence for them being metallopeptidases.
Probab=31.22 E-value=21 Score=26.97 Aligned_cols=9 Identities=33% Similarity=1.298 Sum_probs=3.8
Q ss_pred eeCCCCCcc
Q 046329 202 FGCRKCGKP 210 (280)
Q Consensus 202 ~~C~~C~k~ 210 (280)
|.|..|+..
T Consensus 124 ~~C~~C~~~ 132 (157)
T PF10263_consen 124 YRCPSCGRE 132 (157)
T ss_pred EEcCCCCCE
Confidence 344444433
No 189
>PRK04351 hypothetical protein; Provisional
Probab=31.14 E-value=28 Score=26.40 Aligned_cols=12 Identities=8% Similarity=-0.285 Sum_probs=6.3
Q ss_pred CCccccCCCccc
Q 046329 254 APHTVEFGREVE 265 (280)
Q Consensus 254 ~~~~C~~C~~~~ 265 (280)
..|.|..|+-.+
T Consensus 131 ~~yrCg~C~g~L 142 (149)
T PRK04351 131 KRYRCGKCRGKL 142 (149)
T ss_pred CcEEeCCCCcEe
Confidence 346666665443
No 190
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=30.54 E-value=1.2e+02 Score=26.14 Aligned_cols=35 Identities=14% Similarity=0.204 Sum_probs=24.2
Q ss_pred CCCcccccccccccccCCCCchhhccCCCccccccccccccccchHHHh
Q 046329 87 NPTPNDIVNKLVEGQYWIPSPEQILVGPTQFSCPVCNKTFNRYNNMQMH 135 (280)
Q Consensus 87 ~~~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~L~~H 135 (280)
..|-|+.|...+-+ -|.+|++|+-+.....+|.+-
T Consensus 275 ~Gy~CP~CkakvCs--------------LP~eCpiC~ltLVss~hLARS 309 (378)
T KOG2807|consen 275 GGYFCPQCKAKVCS--------------LPIECPICSLTLVSSPHLARS 309 (378)
T ss_pred CceeCCcccCeeec--------------CCccCCccceeEecchHHHHH
Confidence 34566666654443 467899999998888888753
No 191
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=30.19 E-value=36 Score=20.81 Aligned_cols=36 Identities=22% Similarity=0.603 Sum_probs=14.6
Q ss_pred CeeCCC--CCcccccchhhhHhhh-cc-Ccceee-c----cCcccC
Q 046329 201 PFGCRK--CGKPFAVRGDWRTHEK-NC-GKLWFC-I----CGSDFK 237 (280)
Q Consensus 201 p~~C~~--C~k~F~~~~~L~~H~~-~~-~k~~~C-~----C~k~F~ 237 (280)
+..|+. |...+. +..|..|+. .. .++..| . |...+.
T Consensus 9 ~v~C~~~cc~~~i~-r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~ 53 (60)
T PF02176_consen 9 PVPCPNGCCNEMIP-RKELDDHLENECPKRPVPCPYSPYGCKERVP 53 (60)
T ss_dssp EEE-TT--S-BEEE-CCCHHHHHHTTSTTSEEE-SS----S--EEE
T ss_pred EeeCCCCCccccee-HHHHHHHHHccCCCCcEECCCCCCCCCCccc
Confidence 445555 333333 345666665 32 244555 4 555443
No 192
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=30.03 E-value=36 Score=18.78 Aligned_cols=13 Identities=23% Similarity=0.708 Sum_probs=9.0
Q ss_pred ccccccccccccc
Q 046329 117 FSCPVCNKTFNRY 129 (280)
Q Consensus 117 ~~C~~C~~~f~~~ 129 (280)
..|+.||+.|...
T Consensus 2 r~C~~Cg~~Yh~~ 14 (36)
T PF05191_consen 2 RICPKCGRIYHIE 14 (36)
T ss_dssp EEETTTTEEEETT
T ss_pred cCcCCCCCccccc
Confidence 4588888877643
No 193
>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=30.01 E-value=28 Score=25.01 Aligned_cols=25 Identities=8% Similarity=0.077 Sum_probs=14.5
Q ss_pred ceee-ccCcccCChhhHHHHHHHhCCCCCCccccCCCcc
Q 046329 227 LWFC-ICGSDFKHKRSLKDHVRSFGDGHAPHTVEFGREV 264 (280)
Q Consensus 227 ~~~C-~C~k~F~~~~~L~~H~r~~h~~~~~~~C~~C~~~ 264 (280)
...| .|++.|..... .+.|+.||-.
T Consensus 70 ~~~C~~Cg~~~~~~~~-------------~~~CP~Cgs~ 95 (115)
T TIGR00100 70 ECECEDCSEEVSPEID-------------LYRCPKCHGI 95 (115)
T ss_pred EEEcccCCCEEecCCc-------------CccCcCCcCC
Confidence 3567 77766654321 3567777753
No 194
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=29.86 E-value=24 Score=30.49 Aligned_cols=55 Identities=11% Similarity=-0.015 Sum_probs=36.7
Q ss_pred CCCCeeCCC--CCcccccchhhhHhhh-------ccCcceeeccCcccCChhhHHHHHHHhCCC
Q 046329 198 GAKPFGCRK--CGKPFAVRGDWRTHEK-------NCGKLWFCICGSDFKHKRSLKDHVRSFGDG 252 (280)
Q Consensus 198 ~ekp~~C~~--C~k~F~~~~~L~~H~~-------~~~k~~~C~C~k~F~~~~~L~~H~r~~h~~ 252 (280)
.|+++.|.. |.++........-|-. +-.+||+|.|++.+.++..|..|---.|.+
T Consensus 175 EE~~~S~~vp~~~~~~~~~Ns~~~~S~~~~~T~~t~~~p~k~~~~~~~~T~~~l~~HS~N~~~~ 238 (442)
T KOG4124|consen 175 EEYRVSVVVPAAAAAAAAANSSDMSSDEASSTAETTGTPKKMPESLVMDTSSPLSDHSMNIDVG 238 (442)
T ss_pred ccccccccCchhhhhhhccccccccccccccccccccCCccCcccccccccchhhhccccCCCC
Confidence 367777755 6555554444444432 346899999999999999988886544443
No 195
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=29.74 E-value=27 Score=25.89 Aligned_cols=39 Identities=10% Similarity=-0.083 Sum_probs=22.3
Q ss_pred CCCccccccccccccc---C------CCCchhhccCCCcccccccccc
Q 046329 87 NPTPNDIVNKLVEGQY---W------IPSPEQILVGPTQFSCPVCNKT 125 (280)
Q Consensus 87 ~~~~C~~c~~~~~~~~---~------l~~h~~~h~~~~~~~C~~C~~~ 125 (280)
..+.|..|+..|.... . ...|.---.....+.|+.||..
T Consensus 69 ~~~~C~~CG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CP~Cgs~ 116 (135)
T PRK03824 69 AVLKCRNCGNEWSLKEVKESLDEEIREAIHFIPEVVHAFLKCPKCGSR 116 (135)
T ss_pred eEEECCCCCCEEecccccccccccccccccccccccccCcCCcCCCCC
Confidence 3478999998887641 1 1112111111344679999964
No 196
>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=29.39 E-value=46 Score=30.82 Aligned_cols=9 Identities=22% Similarity=0.567 Sum_probs=5.2
Q ss_pred ccccCCCcC
Q 046329 161 RLPCYCCAE 169 (280)
Q Consensus 161 ~~~C~~C~~ 169 (280)
+..|+.|+.
T Consensus 253 ~~~Cp~C~s 261 (505)
T TIGR00595 253 PKTCPQCGS 261 (505)
T ss_pred CCCCCCCCC
Confidence 445666653
No 197
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=29.27 E-value=53 Score=27.02 Aligned_cols=14 Identities=36% Similarity=0.691 Sum_probs=9.6
Q ss_pred CeeCCCCCcccccc
Q 046329 201 PFGCRKCGKPFAVR 214 (280)
Q Consensus 201 p~~C~~C~k~F~~~ 214 (280)
-|.|+.|+..|...
T Consensus 155 ef~C~~C~h~F~G~ 168 (278)
T PF15135_consen 155 EFHCPKCRHNFRGF 168 (278)
T ss_pred eeecccccccchhh
Confidence 47777777777644
No 198
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=29.15 E-value=35 Score=30.76 Aligned_cols=22 Identities=36% Similarity=0.883 Sum_probs=19.5
Q ss_pred eee-ccCcccCChhhHHHHHHHh
Q 046329 228 WFC-ICGSDFKHKRSLKDHVRSF 249 (280)
Q Consensus 228 ~~C-~C~k~F~~~~~L~~H~r~~ 249 (280)
+.| +|.|+|++.-.|..|..+.
T Consensus 293 lyC~vCnKsFKseKq~kNHEnSK 315 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENSK 315 (508)
T ss_pred eEEeeccccccchHHHHhhHHHH
Confidence 789 9999999999999998764
No 199
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=28.96 E-value=71 Score=24.56 Aligned_cols=22 Identities=14% Similarity=0.421 Sum_probs=12.6
Q ss_pred cCcceee-ccCcccCChhhHHHH
Q 046329 224 CGKLWFC-ICGSDFKHKRSLKDH 245 (280)
Q Consensus 224 ~~k~~~C-~C~k~F~~~~~L~~H 245 (280)
.+..|.| .||+-|---++...=
T Consensus 127 ~~~f~~C~~CgkiYW~GsHw~~m 149 (165)
T COG1656 127 YEEFYRCPKCGKIYWKGSHWRRM 149 (165)
T ss_pred ccceeECCCCcccccCchHHHHH
Confidence 3455667 677766655544433
No 200
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=28.60 E-value=33 Score=19.34 Aligned_cols=32 Identities=16% Similarity=0.253 Sum_probs=16.2
Q ss_pred CCcccccccccccccCCCCchhhccCCCcccccccccc
Q 046329 88 PTPNDIVNKLVEGQYWIPSPEQILVGPTQFSCPVCNKT 125 (280)
Q Consensus 88 ~~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~ 125 (280)
+..|..|+..+... .++..+.+.+.|..|+..
T Consensus 2 p~rC~~C~aylNp~------~~~~~~~~~w~C~~C~~~ 33 (40)
T PF04810_consen 2 PVRCRRCRAYLNPF------CQFDDGGKTWICNFCGTK 33 (40)
T ss_dssp S-B-TTT--BS-TT------SEEETTTTEEEETTT--E
T ss_pred ccccCCCCCEECCc------ceEcCCCCEEECcCCCCc
Confidence 45677777655543 334445677999999875
No 201
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=28.59 E-value=27 Score=25.63 Aligned_cols=15 Identities=40% Similarity=0.966 Sum_probs=11.0
Q ss_pred CeeCCCCCcccccch
Q 046329 201 PFGCRKCGKPFAVRG 215 (280)
Q Consensus 201 p~~C~~C~k~F~~~~ 215 (280)
|++|..||+.|..-+
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 577888888887543
No 202
>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=28.34 E-value=20 Score=20.61 Aligned_cols=15 Identities=47% Similarity=1.329 Sum_probs=9.2
Q ss_pred CCeeCCCCCcccccc
Q 046329 200 KPFGCRKCGKPFAVR 214 (280)
Q Consensus 200 kp~~C~~C~k~F~~~ 214 (280)
-||.|..|++.|=..
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 378999999888643
No 203
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=27.51 E-value=41 Score=21.34 Aligned_cols=14 Identities=29% Similarity=0.816 Sum_probs=8.9
Q ss_pred CCCeeCCCCCcccc
Q 046329 199 AKPFGCRKCGKPFA 212 (280)
Q Consensus 199 ekp~~C~~C~k~F~ 212 (280)
.+-|.|+.||..+.
T Consensus 44 ~r~~~C~~Cg~~~~ 57 (69)
T PF07282_consen 44 GRVFTCPNCGFEMD 57 (69)
T ss_pred cceEEcCCCCCEEC
Confidence 45577777776644
No 204
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=27.32 E-value=35 Score=24.62 Aligned_cols=12 Identities=33% Similarity=0.506 Sum_probs=7.2
Q ss_pred ceee-ccCcccCC
Q 046329 227 LWFC-ICGSDFKH 238 (280)
Q Consensus 227 ~~~C-~C~k~F~~ 238 (280)
.+.| .||..|..
T Consensus 71 ~~~C~~Cg~~~~~ 83 (117)
T PRK00564 71 ELECKDCSHVFKP 83 (117)
T ss_pred EEEhhhCCCcccc
Confidence 3566 67766644
No 205
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=27.25 E-value=26 Score=24.57 Aligned_cols=23 Identities=22% Similarity=0.605 Sum_probs=17.9
Q ss_pred cceee-ccCcccCChhhHHHHHHH
Q 046329 226 KLWFC-ICGSDFKHKRSLKDHVRS 248 (280)
Q Consensus 226 k~~~C-~C~k~F~~~~~L~~H~r~ 248 (280)
-.+.| .|.+-|.+...|..|.+.
T Consensus 54 GqhYCieCaryf~t~~aL~~Hkkg 77 (126)
T COG5112 54 GQHYCIECARYFITEKALMEHKKG 77 (126)
T ss_pred ceeeeehhHHHHHHHHHHHHHhcc
Confidence 34667 888888888888888764
No 206
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=27.22 E-value=18 Score=26.62 Aligned_cols=16 Identities=31% Similarity=0.995 Sum_probs=11.7
Q ss_pred CCCeeCCCCCcccccc
Q 046329 199 AKPFGCRKCGKPFAVR 214 (280)
Q Consensus 199 ekp~~C~~C~k~F~~~ 214 (280)
...|+|..|++.|...
T Consensus 51 ~qRyrC~~C~~tf~~~ 66 (129)
T COG3677 51 HQRYKCKSCGSTFTVE 66 (129)
T ss_pred ccccccCCcCcceeee
Confidence 4568888888888653
No 207
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=27.15 E-value=48 Score=17.96 Aligned_cols=21 Identities=29% Similarity=0.722 Sum_probs=12.6
Q ss_pred CeeCCCCCcccccchhhhHhhh
Q 046329 201 PFGCRKCGKPFAVRGDWRTHEK 222 (280)
Q Consensus 201 p~~C~~C~k~F~~~~~L~~H~~ 222 (280)
-|.|+.|++.+. .+.+..|+.
T Consensus 4 ~~~C~nC~R~v~-a~RfA~HLe 24 (33)
T PF08209_consen 4 YVECPNCGRPVA-ASRFAPHLE 24 (33)
T ss_dssp EEE-TTTSSEEE-GGGHHHHHH
T ss_pred eEECCCCcCCcc-hhhhHHHHH
Confidence 367788877665 445666654
No 208
>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=26.72 E-value=41 Score=20.59 Aligned_cols=15 Identities=13% Similarity=-0.172 Sum_probs=9.3
Q ss_pred ccccCCCcccccccc
Q 046329 256 HTVEFGREVEEDEDE 270 (280)
Q Consensus 256 ~~C~~C~~~~~~~~~ 270 (280)
|+|+.||..++-++.
T Consensus 3 ~~CP~CG~~iev~~~ 17 (54)
T TIGR01206 3 FECPDCGAEIELENP 17 (54)
T ss_pred cCCCCCCCEEecCCC
Confidence 567777776655443
No 209
>cd00924 Cyt_c_Oxidase_Vb Cytochrome c oxidase subunit Vb. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Vb is one of three mammalian subunits that lacks a transmembrane region. Subunit Vb is located on the matrix side of the membrane and binds the regulatory subunit of protein kinase A. The abnormally extended conformation is stable only in the CcO assembly.
Probab=26.55 E-value=32 Score=23.93 Aligned_cols=18 Identities=39% Similarity=0.824 Sum_probs=13.9
Q ss_pred HHhhCCCCeeCCCCCcccc
Q 046329 194 KRKHGAKPFGCRKCGKPFA 212 (280)
Q Consensus 194 ~~h~~ekp~~C~~C~k~F~ 212 (280)
..+.| +|++|..||..|.
T Consensus 73 ~l~~g-~~~rC~eCG~~fk 90 (97)
T cd00924 73 WLEKG-KPKRCPECGHVFK 90 (97)
T ss_pred EEeCC-CceeCCCCCcEEE
Confidence 34555 7999999998886
No 210
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=25.84 E-value=40 Score=19.90 Aligned_cols=11 Identities=55% Similarity=1.023 Sum_probs=5.2
Q ss_pred CeeCCCCCccc
Q 046329 201 PFGCRKCGKPF 211 (280)
Q Consensus 201 p~~C~~C~k~F 211 (280)
.|.|+.||..+
T Consensus 20 ~~vC~~Cg~~~ 30 (52)
T smart00661 20 RFVCRKCGYEE 30 (52)
T ss_pred EEECCcCCCeE
Confidence 34555555443
No 211
>KOG1994 consensus Predicted RNA binding protein, contains G-patch and Zn-finger domains [RNA processing and modification]
Probab=25.75 E-value=43 Score=27.09 Aligned_cols=22 Identities=27% Similarity=0.902 Sum_probs=18.2
Q ss_pred Ccceee-ccCcccCChhhHHHHH
Q 046329 225 GKLWFC-ICGSDFKHKRSLKDHV 246 (280)
Q Consensus 225 ~k~~~C-~C~k~F~~~~~L~~H~ 246 (280)
...|.| .||..|.....|..|-
T Consensus 237 ~eh~YC~fCG~~y~~~edl~ehC 259 (268)
T KOG1994|consen 237 SEHYYCFFCGIKYKDEEDLYEHC 259 (268)
T ss_pred ccceEEEEeccccCCHHHHHHhC
Confidence 346889 9999999999998873
No 212
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=25.63 E-value=50 Score=31.68 Aligned_cols=21 Identities=29% Similarity=0.607 Sum_probs=14.5
Q ss_pred CCeeCCCCCcccccchhhhHh
Q 046329 200 KPFGCRKCGKPFAVRGDWRTH 220 (280)
Q Consensus 200 kp~~C~~C~k~F~~~~~L~~H 220 (280)
|.=+||.|+.+|.....+..|
T Consensus 677 RqRKCP~Cn~aFganDv~~I~ 697 (698)
T KOG0978|consen 677 RQRKCPKCNAAFGANDVHRIH 697 (698)
T ss_pred hcCCCCCCCCCCCcccccccC
Confidence 334788888888876665554
No 213
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=25.31 E-value=26 Score=29.76 Aligned_cols=103 Identities=17% Similarity=0.313 Sum_probs=53.8
Q ss_pred CCCcccccccccccccCCCCchhhccCCCccccccccccccccchHHHhHh--hhCCCCCCCCccccccccccCCCcccc
Q 046329 87 NPTPNDIVNKLVEGQYWIPSPEQILVGPTQFSCPVCNKTFNRYNNMQMHMW--GHGSQYRKGPESLRGTKAVSSMLRLPC 164 (280)
Q Consensus 87 ~~~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~--~h~~~~~~~~~~~~~~~~~~~~~~~~C 164 (280)
..|-|+.|...+-+ -|..|+.|.-......+|.+-.. .--..+...+. + ..-+.-.|
T Consensus 307 gGy~CP~CktkVCs--------------LPi~CP~Csl~LilsthLarSyhhL~PLk~f~E~p~---~----~~~ks~~C 365 (421)
T COG5151 307 GGYECPVCKTKVCS--------------LPISCPICSLQLILSTHLARSYHHLYPLKPFVEKPE---G----TNPKSTHC 365 (421)
T ss_pred CceeCCcccceeec--------------CCccCcchhHHHHHHHHHHHHHHhhccCcccccccC---C----CCCCCccc
Confidence 44677777665443 35779999988776666654321 11111111000 0 11122346
Q ss_pred CCCcCCccCCCCCCCCCCCCChHHHHHHHHHhhCCCCeeCCCCCcccccchhhhHhhhcc
Q 046329 165 YCCAEGCKNNIGHPRSRPLKDFRTLQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEKNC 224 (280)
Q Consensus 165 ~~C~~~~~~~~~~~~~k~f~~~~~L~~H~~~h~~ekp~~C~~C~k~F~~~~~L~~H~~~~ 224 (280)
..|.--|+....|+ |.. -+....|+|..|...|-..-..-.|...|
T Consensus 366 f~CQ~~fp~~~~~~----~~~----------~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 366 FVCQGPFPKPPVSP----FDE----------STSSGRYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred eeccCCCCCCCCCc----ccc----------cccccceechhhhhhhhhhhHHHHHHHHh
Confidence 66654444332222 111 01234599999999998877777665433
No 214
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=25.13 E-value=21 Score=31.74 Aligned_cols=18 Identities=28% Similarity=0.670 Sum_probs=10.8
Q ss_pred CeeCCCCCcccccchhhh
Q 046329 201 PFGCRKCGKPFAVRGDWR 218 (280)
Q Consensus 201 p~~C~~C~k~F~~~~~L~ 218 (280)
=|.|..|.+...-.+.+.
T Consensus 302 CFtC~~C~r~L~Gq~FY~ 319 (468)
T KOG1701|consen 302 CFTCRTCRRQLAGQSFYQ 319 (468)
T ss_pred ceehHhhhhhhccccccc
Confidence 477777776655554443
No 215
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=24.92 E-value=44 Score=29.89 Aligned_cols=31 Identities=13% Similarity=0.186 Sum_probs=23.9
Q ss_pred cccccccccccccCCCCchhhccCCCccccccccccccccch
Q 046329 90 PNDIVNKLVEGQYWIPSPEQILVGPTQFSCPVCNKTFNRYNN 131 (280)
Q Consensus 90 ~C~~c~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~ 131 (280)
.|+.|+....+. |.+-|.|+.|+..+.....
T Consensus 352 ~Cp~Cg~~m~S~-----------G~~g~rC~kCg~~~~~~~~ 382 (421)
T COG1571 352 VCPRCGGRMKSA-----------GRNGFRCKKCGTRARETLI 382 (421)
T ss_pred CCCccCCchhhc-----------CCCCcccccccccCCcccc
Confidence 699999877653 5558999999998876544
No 216
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=24.75 E-value=21 Score=21.64 Aligned_cols=14 Identities=7% Similarity=0.088 Sum_probs=7.3
Q ss_pred cccCCCcccccccc
Q 046329 257 TVEFGREVEEDEDE 270 (280)
Q Consensus 257 ~C~~C~~~~~~~~~ 270 (280)
.|++|+..|.++..
T Consensus 22 ~CPlC~r~l~~e~~ 35 (54)
T PF04423_consen 22 CCPLCGRPLDEEHR 35 (54)
T ss_dssp E-TTT--EE-HHHH
T ss_pred cCCCCCCCCCHHHH
Confidence 89999988876544
No 217
>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=23.97 E-value=35 Score=24.40 Aligned_cols=12 Identities=33% Similarity=0.808 Sum_probs=6.6
Q ss_pred eee-ccCcccCCh
Q 046329 228 WFC-ICGSDFKHK 239 (280)
Q Consensus 228 ~~C-~C~k~F~~~ 239 (280)
+.| .||+.|.-.
T Consensus 71 ~~C~~Cg~~~~~~ 83 (113)
T PF01155_consen 71 ARCRDCGHEFEPD 83 (113)
T ss_dssp EEETTTS-EEECH
T ss_pred EECCCCCCEEecC
Confidence 566 666666543
No 218
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=23.93 E-value=45 Score=31.04 Aligned_cols=25 Identities=20% Similarity=0.395 Sum_probs=21.8
Q ss_pred Ccceee-ccCcccCChhhHHHHHHHh
Q 046329 225 GKLWFC-ICGSDFKHKRSLKDHVRSF 249 (280)
Q Consensus 225 ~k~~~C-~C~k~F~~~~~L~~H~r~~ 249 (280)
..+-.| .||.+|........||-+|
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~H 441 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDIH 441 (579)
T ss_pred CCcchhcccccccccchhhhhHhhhh
Confidence 567899 9999999999888888774
No 219
>COG4640 Predicted membrane protein [Function unknown]
Probab=23.92 E-value=55 Score=28.93 Aligned_cols=21 Identities=24% Similarity=0.600 Sum_probs=14.0
Q ss_pred CCCeeCCCCCcccccchhhhH
Q 046329 199 AKPFGCRKCGKPFAVRGDWRT 219 (280)
Q Consensus 199 ekp~~C~~C~k~F~~~~~L~~ 219 (280)
|..+.|.+||..|.....+..
T Consensus 13 Ed~~qC~qCG~~~t~~~sqan 33 (465)
T COG4640 13 EDDVQCTQCGHKFTSRQSQAN 33 (465)
T ss_pred cccccccccCCcCCchhhhhh
Confidence 344558888888877665554
No 220
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=23.64 E-value=28 Score=25.97 Aligned_cols=22 Identities=18% Similarity=0.448 Sum_probs=19.0
Q ss_pred cccccccccccccchHHHhHhh
Q 046329 117 FSCPVCNKTFNRYNNMQMHMWG 138 (280)
Q Consensus 117 ~~C~~C~~~f~~~~~L~~H~~~ 138 (280)
|.|..||..+-+...|..|..+
T Consensus 130 ysC~~CG~kyCsv~C~~~HneT 151 (156)
T KOG3362|consen 130 YSCVNCGTKYCSVRCLKTHNET 151 (156)
T ss_pred hHHHhcCCceeechhhhhcccc
Confidence 7899999999999999888653
No 221
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=23.60 E-value=48 Score=20.55 Aligned_cols=11 Identities=36% Similarity=0.836 Sum_probs=4.7
Q ss_pred eee-ccCcccCC
Q 046329 228 WFC-ICGSDFKH 238 (280)
Q Consensus 228 ~~C-~C~k~F~~ 238 (280)
..| .|++.+..
T Consensus 3 v~CP~C~k~~~~ 14 (57)
T PF03884_consen 3 VKCPICGKPVEW 14 (57)
T ss_dssp EE-TTT--EEE-
T ss_pred ccCCCCCCeecc
Confidence 467 88877655
No 222
>PRK12722 transcriptional activator FlhC; Provisional
Probab=23.06 E-value=58 Score=25.70 Aligned_cols=48 Identities=13% Similarity=0.087 Sum_probs=31.0
Q ss_pred CCcccccchhhhHhhhccC-cceee-ccCcccCChhhHHHHHHHhCCCCCCccccCCCc
Q 046329 207 CGKPFAVRGDWRTHEKNCG-KLWFC-ICGSDFKHKRSLKDHVRSFGDGHAPHTVEFGRE 263 (280)
Q Consensus 207 C~k~F~~~~~L~~H~~~~~-k~~~C-~C~k~F~~~~~L~~H~r~~h~~~~~~~C~~C~~ 263 (280)
+--+|.+...|.+.+..+. ..-.| .||-.|.... |.....|.|++|.-
T Consensus 113 ~~Ls~tRAw~LvRf~~s~~L~l~~C~~Cgg~fv~~~---------~e~~~~f~CplC~~ 162 (187)
T PRK12722 113 PLLSLTRAWTLVRFVDSGMLQLSSCNCCGGHFVTHA---------HDPVGSFVCGLCQP 162 (187)
T ss_pred ceecHHHHHHHHHHHhcCcEeeccCCCCCCCeeccc---------cccCCCCcCCCCCC
Confidence 3467777777777777554 34567 7887776432 23345788888865
No 223
>PF11494 Ta0938: Ta0938; InterPro: IPR021585 Ta0938 is a protein of unknown function however the structure has been determined. The protein has a novel fold and a putative Zn-binding motif. The structure has two different parts, one region contains a beta sheet flanked by two alpha helices and the other contains a bundle of loops which contain all cysteines in the protein. ; PDB: 2FQH_A.
Probab=22.51 E-value=44 Score=23.04 Aligned_cols=35 Identities=34% Similarity=0.844 Sum_probs=10.7
Q ss_pred CCeeCCCCCcccccchhhhHhhh-ccCcceee--ccCcccCCh
Q 046329 200 KPFGCRKCGKPFAVRGDWRTHEK-NCGKLWFC--ICGSDFKHK 239 (280)
Q Consensus 200 kp~~C~~C~k~F~~~~~L~~H~~-~~~k~~~C--~C~k~F~~~ 239 (280)
|.-.|..||.+.... +.. -+++.|-| .|-+.|.+-
T Consensus 13 ke~~CalCG~tWg~~-----y~Ev~G~rLfFCCd~ca~EF~nm 50 (105)
T PF11494_consen 13 KEMGCALCGATWGDY-----YEEVDGERLFFCCDDCAKEFKNM 50 (105)
T ss_dssp GGGS-SS---S---S-----S-B-TT--BSSS--SSSS-TTS-
T ss_pred ccccccccCCcHHHH-----HHhhcCCEEEEEcHHHHHHHHHH
Confidence 334555565554311 112 24455444 566666553
No 224
>PF13821 DUF4187: Domain of unknown function (DUF4187)
Probab=22.43 E-value=58 Score=19.96 Aligned_cols=16 Identities=25% Similarity=0.864 Sum_probs=7.0
Q ss_pred ceee-ccCcccCChhhH
Q 046329 227 LWFC-ICGSDFKHKRSL 242 (280)
Q Consensus 227 ~~~C-~C~k~F~~~~~L 242 (280)
.+-| .||..|.....|
T Consensus 27 ~~YC~~Cg~~Y~d~~dL 43 (55)
T PF13821_consen 27 HNYCFWCGTKYDDEEDL 43 (55)
T ss_pred CceeeeeCCccCCHHHH
Confidence 3344 444444444444
No 225
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=22.29 E-value=64 Score=19.51 Aligned_cols=11 Identities=36% Similarity=1.141 Sum_probs=5.0
Q ss_pred eeCCCCCcccc
Q 046329 202 FGCRKCGKPFA 212 (280)
Q Consensus 202 ~~C~~C~k~F~ 212 (280)
++|..||..|.
T Consensus 29 W~C~~Cgh~w~ 39 (55)
T PF14311_consen 29 WKCPKCGHEWK 39 (55)
T ss_pred EECCCCCCeeE
Confidence 44444444443
No 226
>KOG4317 consensus Predicted Zn-finger protein [Function unknown]
Probab=22.03 E-value=38 Score=28.85 Aligned_cols=19 Identities=11% Similarity=-0.193 Sum_probs=9.7
Q ss_pred CcccccccccccccCCCCc
Q 046329 89 TPNDIVNKLVEGQYWIPSP 107 (280)
Q Consensus 89 ~~C~~c~~~~~~~~~l~~h 107 (280)
|.|+.|+..|-+..-++.|
T Consensus 20 YtCPRCn~~YCsl~CYr~h 38 (383)
T KOG4317|consen 20 YTCPRCNLLYCSLKCYRNH 38 (383)
T ss_pred ccCCCCCccceeeeeecCC
Confidence 5555555555544444433
No 227
>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.
Probab=21.90 E-value=89 Score=24.72 Aligned_cols=49 Identities=29% Similarity=0.607 Sum_probs=26.6
Q ss_pred eeCCC----CCcccccchhhhHhhhccC-cceee-c----cCcccCChhhHHHHHHHhCCC
Q 046329 202 FGCRK----CGKPFAVRGDWRTHEKNCG-KLWFC-I----CGSDFKHKRSLKDHVRSFGDG 252 (280)
Q Consensus 202 ~~C~~----C~k~F~~~~~L~~H~~~~~-k~~~C-~----C~k~F~~~~~L~~H~r~~h~~ 252 (280)
|.|.. |...|.. ..+..|...+. +||.| . |+..= ....|..|.+..|..
T Consensus 15 ~pC~~~~~GC~~~~~~-~~~~~HE~~C~~~p~~CP~~~~~C~~~G-~~~~l~~Hl~~~H~~ 73 (198)
T PF03145_consen 15 FPCKNAKYGCTETFPY-SEKREHEEECPFRPCSCPFPGSGCDWQG-SYKELLDHLRDKHSW 73 (198)
T ss_dssp EE-CCGGGT---EE-G-GGHHHHHHT-TTSEEE-SSSSTT---EE-ECCCHHHHHHHHTTT
T ss_pred ecCCCCCCCCcccccc-cChhhHhccCCCcCCcCCCCCCCccccC-CHHHHHHHHHHHCCC
Confidence 56655 7777664 46777888764 78888 5 54333 344788999887765
No 228
>PF06397 Desulfoferrod_N: Desulfoferrodoxin, N-terminal domain; InterPro: IPR004462 This domain is found as essentially the full length of desulforedoxin, a 37-residue homodimeric non-haem iron protein. It is also found as the N-terminal domain of desulfoferrodoxin (rbo), a homodimeric non-haem iron protein with 2 Fe atoms per monomer in different oxidation states. This domain binds the ferric rather than the ferrous Fe of desulfoferrodoxin. Neelaredoxin, a monomeric blue non-haem iron protein, lacks this domain.; GO: 0005506 iron ion binding; PDB: 1DFX_A 1VZI_B 2JI2_D 1VZH_B 2JI3_C 2JI1_C 1VZG_A 1CFW_A 2LK5_B 1DHG_B ....
Probab=21.81 E-value=30 Score=19.20 Aligned_cols=12 Identities=17% Similarity=0.011 Sum_probs=6.0
Q ss_pred CccccCCCcccc
Q 046329 255 PHTVEFGREVEE 266 (280)
Q Consensus 255 ~~~C~~C~~~~~ 266 (280)
-|+|++||...+
T Consensus 6 ~YkC~~CGniVe 17 (36)
T PF06397_consen 6 FYKCEHCGNIVE 17 (36)
T ss_dssp EEE-TTT--EEE
T ss_pred EEEccCCCCEEE
Confidence 477888877554
No 229
>PRK12860 transcriptional activator FlhC; Provisional
Probab=21.69 E-value=63 Score=25.53 Aligned_cols=47 Identities=13% Similarity=0.036 Sum_probs=31.1
Q ss_pred CCcccccchhhhHhhhccC-cceee-ccCcccCChhhHHHHHHHhCCCCCCccccCCC
Q 046329 207 CGKPFAVRGDWRTHEKNCG-KLWFC-ICGSDFKHKRSLKDHVRSFGDGHAPHTVEFGR 262 (280)
Q Consensus 207 C~k~F~~~~~L~~H~~~~~-k~~~C-~C~k~F~~~~~L~~H~r~~h~~~~~~~C~~C~ 262 (280)
+--+|.....|.+.+..+. ..-.| .||-.|.... |.....|.|++|.
T Consensus 113 ~~Ls~tRAw~LvRf~~s~~L~l~~C~~Cgg~fv~~~---------~e~~~~f~CplC~ 161 (189)
T PRK12860 113 PVLDLTRAWTLVRFFDAGMLQLARCCRCGGKFVTHA---------HDLRHNFVCGLCQ 161 (189)
T ss_pred ceecHHHHHHHHHHhcCCCeeeccCCCCCCCeeccc---------cccCCCCcCCCCC
Confidence 4467777777777777654 44567 7888776331 3344578888886
No 230
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=21.64 E-value=39 Score=24.24 Aligned_cols=9 Identities=0% Similarity=-0.285 Sum_probs=5.6
Q ss_pred ccccCCCcc
Q 046329 256 HTVEFGREV 264 (280)
Q Consensus 256 ~~C~~C~~~ 264 (280)
+.|+.||-.
T Consensus 88 ~~CP~Cgs~ 96 (114)
T PRK03681 88 RRCPQCHGD 96 (114)
T ss_pred CcCcCcCCC
Confidence 457777743
No 231
>PF06170 DUF983: Protein of unknown function (DUF983); InterPro: IPR009325 This family consists of several bacterial proteins of unknown function.
Probab=21.59 E-value=52 Score=22.30 Aligned_cols=17 Identities=6% Similarity=-0.117 Sum_probs=12.3
Q ss_pred ccccCCCccccccccCC
Q 046329 256 HTVEFGREVEEDEDEDN 272 (280)
Q Consensus 256 ~~C~~C~~~~~~~~~~~ 272 (280)
=+|+.||..+.-.+-+|
T Consensus 9 ~~C~~CG~d~~~~~adD 25 (86)
T PF06170_consen 9 PRCPHCGLDYSHARADD 25 (86)
T ss_pred CcccccCCccccCCcCc
Confidence 36999999887766533
No 232
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=21.49 E-value=41 Score=19.17 Aligned_cols=42 Identities=17% Similarity=0.228 Sum_probs=18.5
Q ss_pred CCCCCcccccchhhhHhhhccCcceeeccCcccCChhhHHHHHHHhCCCCCCccccCC
Q 046329 204 CRKCGKPFAVRGDWRTHEKNCGKLWFCICGSDFKHKRSLKDHVRSFGDGHAPHTVEFG 261 (280)
Q Consensus 204 C~~C~k~F~~~~~L~~H~~~~~k~~~C~C~k~F~~~~~L~~H~r~~h~~~~~~~C~~C 261 (280)
|++|-..|.....|. ||.+|=..- |.+-.+. . ....+.|++|
T Consensus 1 CpiC~~~~~~Pv~l~-------------CGH~FC~~C-l~~~~~~-~-~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSLP-------------CGHSFCRSC-LERLWKE-P-SGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE-S-------------SSSEEEHHH-HHHHHCC-S-SSST---SSS
T ss_pred CCccchhhCCccccC-------------CcCHHHHHH-HHHHHHc-c-CCcCCCCcCC
Confidence 456666666554433 666665442 4444443 2 2222777776
No 233
>PF11672 DUF3268: Protein of unknown function (DUF3268); InterPro: IPR021686 This entry is represented by Listeria phage P100, Gp150. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=21.46 E-value=69 Score=22.54 Aligned_cols=39 Identities=15% Similarity=0.121 Sum_probs=20.0
Q ss_pred CCCcccccccccccccCCCCchhhc-cCCCcccccccccc
Q 046329 87 NPTPNDIVNKLVEGQYWIPSPEQIL-VGPTQFSCPVCNKT 125 (280)
Q Consensus 87 ~~~~C~~c~~~~~~~~~l~~h~~~h-~~~~~~~C~~C~~~ 125 (280)
+|..|+.|+........-..--+.. .+.-.|.|..|+.-
T Consensus 1 ~p~~CpYCg~~~~l~~~~~iYg~~~~~~~~~y~C~~C~Ay 40 (102)
T PF11672_consen 1 KPIICPYCGGPAELVDGSEIYGHRYDDGPYLYVCTPCDAY 40 (102)
T ss_pred CCcccCCCCCeeEEcccchhcCccCCCCceeEECCCCCce
Confidence 4678999988544332111000111 12223889988763
No 234
>KOG3214 consensus Uncharacterized Zn ribbon-containing protein [Function unknown]
Probab=20.74 E-value=54 Score=22.76 Aligned_cols=46 Identities=11% Similarity=0.104 Sum_probs=27.6
Q ss_pred CCCCCCCCCCcccccccccccccCCCCchhhccCCCcccccccccccccc
Q 046329 80 EAAGSTSNPTPNDIVNKLVEGQYWIPSPEQILVGPTQFSCPVCNKTFNRY 129 (280)
Q Consensus 80 ~~~~~~~~~~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~ 129 (280)
.........|.|.+|+..-.-.-.| ..........|.+|+..|...
T Consensus 15 r~~~~ldt~FnClfcnHek~v~~~~----Dk~~~iG~~sC~iC~esFqt~ 60 (109)
T KOG3214|consen 15 RRVEPLDTQFNCLFCNHEKSVSCTL----DKKHNIGKASCRICEESFQTT 60 (109)
T ss_pred hhccchheeeccCccccccceeeee----hhhcCcceeeeeehhhhhccc
Confidence 3444556778999998754322222 122233345799999998764
No 235
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=20.60 E-value=67 Score=29.28 Aligned_cols=28 Identities=21% Similarity=0.589 Sum_probs=23.1
Q ss_pred cceee-ccCcccCChhhHHHHHHHhCCCC
Q 046329 226 KLWFC-ICGSDFKHKRSLKDHVRSFGDGH 253 (280)
Q Consensus 226 k~~~C-~C~k~F~~~~~L~~H~r~~h~~~ 253 (280)
+-+.| .|.+.|.....+..|+...|.+.
T Consensus 56 rFWiCp~CskkF~d~~~~~~H~~~eH~~~ 84 (466)
T PF04780_consen 56 RFWICPRCSKKFSDAESCLSHMEQEHPAG 84 (466)
T ss_pred eEeeCCcccceeCCHHHHHHHHHHhhhhh
Confidence 34678 89999999999999998877764
No 236
>PF05129 Elf1: Transcription elongation factor Elf1 like; InterPro: IPR007808 This family of uncharacterised, mostly short, proteins contain a putative zinc binding domain with four conserved cysteines.; PDB: 1WII_A.
Probab=20.56 E-value=26 Score=23.49 Aligned_cols=44 Identities=18% Similarity=0.186 Sum_probs=16.6
Q ss_pred CCCCCCCCcccccccccccccCCCCchhhccCCCcccccccccccccc
Q 046329 82 AGSTSNPTPNDIVNKLVEGQYWIPSPEQILVGPTQFSCPVCNKTFNRY 129 (280)
Q Consensus 82 ~~~~~~~~~C~~c~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~ 129 (280)
.....+.|.|++|+..-+-...+..- .+.....|..|+..|...
T Consensus 16 ~~~l~~~F~CPfC~~~~sV~v~idkk----~~~~~~~C~~Cg~~~~~~ 59 (81)
T PF05129_consen 16 KPKLPKVFDCPFCNHEKSVSVKIDKK----EGIGILSCRVCGESFQTK 59 (81)
T ss_dssp ----SS----TTT--SS-EEEEEETT----TTEEEEEESSS--EEEEE
T ss_pred CCCCCceEcCCcCCCCCeEEEEEEcc----CCEEEEEecCCCCeEEEc
Confidence 34455779999999532221111111 223346799999988655
No 237
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=20.54 E-value=73 Score=19.58 Aligned_cols=15 Identities=27% Similarity=0.720 Sum_probs=11.2
Q ss_pred CCCcccccccccccc
Q 046329 113 GPTQFSCPVCNKTFN 127 (280)
Q Consensus 113 ~~~~~~C~~C~~~f~ 127 (280)
+...|.|+.||..+-
T Consensus 11 ~~v~~~Cp~cGipth 25 (55)
T PF13824_consen 11 AHVNFECPDCGIPTH 25 (55)
T ss_pred cccCCcCCCCCCcCc
Confidence 445689999998753
No 238
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=20.27 E-value=1.5e+02 Score=16.83 Aligned_cols=26 Identities=15% Similarity=0.121 Sum_probs=17.5
Q ss_pred cccCCCcCCccCCCCCCCCCCCCChHHHHHHHHHhh
Q 046329 162 LPCYCCAEGCKNNIGHPRSRPLKDFRTLQTHYKRKH 197 (280)
Q Consensus 162 ~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~~~h~ 197 (280)
-+|..||..+. -....+-..|.+-|.
T Consensus 14 ~~C~~CgM~Y~----------~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 14 TTCPTCGMLYS----------PGSPEDEKLHKKYHD 39 (41)
T ss_pred cCCCCCCCEEC----------CCCHHHHHHHHHHHh
Confidence 58999997722 234567777877764
No 239
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.08 E-value=57 Score=25.40 Aligned_cols=12 Identities=17% Similarity=0.551 Sum_probs=6.3
Q ss_pred eeCCCCCccccc
Q 046329 202 FGCRKCGKPFAV 213 (280)
Q Consensus 202 ~~C~~C~k~F~~ 213 (280)
|.|++|--.|..
T Consensus 132 ~~CPiCl~~~se 143 (187)
T KOG0320|consen 132 YKCPICLDSVSE 143 (187)
T ss_pred cCCCceecchhh
Confidence 555555544443
Done!