Query 008724
Match_columns 556
No_of_seqs 486 out of 3304
Neff 7.0
Searched_HMMs 46136
Date Thu Mar 28 15:47:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008724.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008724hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462 C2H2-type Zn-finger pr 99.9 3.1E-23 6.7E-28 203.3 6.8 131 55-207 131-266 (279)
2 KOG2462 C2H2-type Zn-finger pr 99.8 4.3E-20 9.4E-25 181.2 8.0 124 77-219 125-254 (279)
3 KOG3576 Ovo and related transc 99.7 1.7E-17 3.6E-22 155.5 1.7 113 78-210 113-238 (267)
4 KOG1074 Transcriptional repres 99.5 1.1E-14 2.5E-19 159.8 4.1 58 159-216 880-939 (958)
5 KOG3623 Homeobox transcription 99.5 5E-15 1.1E-19 159.9 0.3 106 82-205 210-330 (1007)
6 KOG1074 Transcriptional repres 99.5 1.3E-14 2.8E-19 159.3 3.5 51 158-208 605-657 (958)
7 KOG3623 Homeobox transcription 99.4 2.2E-13 4.7E-18 147.4 2.4 82 79-180 891-972 (1007)
8 KOG3608 Zn finger proteins [Ge 99.3 4.9E-13 1.1E-17 134.7 0.4 139 63-208 188-345 (467)
9 KOG3576 Ovo and related transc 99.2 1.8E-12 4E-17 121.9 -0.7 82 120-208 114-197 (267)
10 KOG3608 Zn finger proteins [Ge 99.1 9.7E-12 2.1E-16 125.5 0.1 131 76-214 231-382 (467)
11 PLN03086 PRLI-interacting fact 99.1 8.5E-11 1.9E-15 128.6 6.1 104 80-209 451-565 (567)
12 PHA00733 hypothetical protein 98.8 1.6E-09 3.5E-14 97.9 2.0 83 120-211 37-126 (128)
13 PHA00733 hypothetical protein 98.7 2.7E-09 5.9E-14 96.5 1.6 96 68-182 26-124 (128)
14 KOG3993 Transcription factor ( 98.7 1.8E-09 3.9E-14 111.6 0.4 152 53-211 266-485 (500)
15 PLN03086 PRLI-interacting fact 98.5 1.2E-07 2.7E-12 104.1 6.2 115 82-209 407-539 (567)
16 PHA02768 hypothetical protein; 98.3 2.6E-07 5.6E-12 70.3 2.5 45 82-148 5-49 (55)
17 PHA02768 hypothetical protein; 98.3 1.6E-07 3.5E-12 71.4 1.3 43 124-175 6-48 (55)
18 KOG3993 Transcription factor ( 98.2 2.5E-07 5.4E-12 96.0 -1.0 82 123-211 267-383 (500)
19 PF13465 zf-H2C2_2: Zinc-finge 98.2 5.3E-07 1.2E-11 58.5 0.5 26 145-170 1-26 (26)
20 COG5189 SFP1 Putative transcri 97.8 8.6E-06 1.9E-10 82.0 2.5 28 120-152 346-373 (423)
21 PHA00616 hypothetical protein 97.5 3.1E-05 6.7E-10 56.3 1.0 34 82-128 1-34 (44)
22 PHA00732 hypothetical protein 97.5 8.1E-05 1.8E-09 61.6 3.5 23 82-104 1-23 (79)
23 COG5189 SFP1 Putative transcri 97.4 0.00022 4.7E-09 72.1 5.5 74 78-180 345-420 (423)
24 PHA00732 hypothetical protein 97.4 9E-05 1.9E-09 61.3 2.0 45 123-180 1-46 (79)
25 PF05605 zf-Di19: Drought indu 97.3 0.00022 4.8E-09 54.6 3.3 52 82-154 2-53 (54)
26 PF00096 zf-C2H2: Zinc finger, 97.2 0.00016 3.5E-09 45.1 1.5 23 83-105 1-23 (23)
27 PF13465 zf-H2C2_2: Zinc-finge 97.2 0.00018 3.9E-09 46.6 1.5 25 97-141 1-25 (26)
28 PHA00616 hypothetical protein 97.1 6.8E-05 1.5E-09 54.5 -1.0 35 123-164 1-35 (44)
29 PF00096 zf-C2H2: Zinc finger, 96.7 0.00086 1.9E-08 41.7 1.8 22 186-207 1-23 (23)
30 PF13894 zf-C2H2_4: C2H2-type 96.7 0.001 2.2E-08 41.3 2.0 24 83-106 1-24 (24)
31 PF05605 zf-Di19: Drought indu 96.6 0.00084 1.8E-08 51.4 1.3 47 124-180 3-51 (54)
32 KOG2231 Predicted E3 ubiquitin 96.6 0.0011 2.4E-08 74.3 2.3 24 83-106 100-138 (669)
33 PF13912 zf-C2H2_6: C2H2-type 96.4 0.0019 4E-08 41.9 1.6 25 82-106 1-25 (27)
34 PF12756 zf-C2H2_2: C2H2 type 96.3 0.0023 4.9E-08 54.3 2.4 73 125-208 1-74 (100)
35 PF12756 zf-C2H2_2: C2H2 type 96.2 0.0011 2.4E-08 56.3 -0.2 72 84-180 1-72 (100)
36 PF13894 zf-C2H2_4: C2H2-type 96.2 0.0035 7.7E-08 38.8 2.1 23 186-208 1-24 (24)
37 PF13912 zf-C2H2_6: C2H2-type 96.1 0.0033 7.3E-08 40.7 1.5 24 185-208 1-25 (27)
38 KOG1146 Homeobox protein [Gene 96.0 0.0046 9.9E-08 73.2 3.3 123 78-207 461-641 (1406)
39 smart00355 ZnF_C2H2 zinc finge 95.6 0.0092 2E-07 37.3 2.2 24 83-106 1-24 (26)
40 COG5236 Uncharacterized conser 95.5 0.0073 1.6E-07 61.9 2.2 112 82-212 151-279 (493)
41 COG5048 FOG: Zn-finger [Genera 95.4 0.034 7.3E-07 58.9 7.1 137 61-202 296-463 (467)
42 PRK04860 hypothetical protein; 95.2 0.011 2.3E-07 55.7 1.9 28 143-170 128-155 (160)
43 COG5048 FOG: Zn-finger [Genera 94.5 0.031 6.8E-07 59.1 3.9 107 81-207 288-411 (467)
44 PF09237 GAGA: GAGA factor; I 94.4 0.011 2.5E-07 44.1 0.0 30 156-185 22-52 (54)
45 PF12874 zf-met: Zinc-finger o 94.2 0.023 5.1E-07 35.9 1.2 23 83-105 1-23 (25)
46 smart00355 ZnF_C2H2 zinc finge 94.1 0.032 6.9E-07 34.8 1.7 22 186-207 1-23 (26)
47 KOG1146 Homeobox protein [Gene 93.1 0.035 7.6E-07 66.0 0.9 78 120-207 462-541 (1406)
48 PRK04860 hypothetical protein; 92.9 0.065 1.4E-06 50.4 2.3 39 81-143 118-156 (160)
49 PF09237 GAGA: GAGA factor; I 92.8 0.11 2.3E-06 39.0 2.8 29 78-106 20-48 (54)
50 PF12171 zf-C2H2_jaz: Zinc-fin 92.5 0.039 8.5E-07 35.8 0.1 24 82-105 1-24 (27)
51 KOG2231 Predicted E3 ubiquitin 91.6 0.084 1.8E-06 59.6 1.6 98 85-205 153-260 (669)
52 PF12171 zf-C2H2_jaz: Zinc-fin 90.5 0.095 2.1E-06 33.9 0.4 22 159-180 2-23 (27)
53 PF12874 zf-met: Zinc-finger o 90.3 0.18 3.8E-06 31.8 1.5 22 186-207 1-23 (25)
54 PF13909 zf-H2C2_5: C2H2-type 89.8 0.19 4.1E-06 31.5 1.3 23 83-106 1-23 (24)
55 KOG4173 Alpha-SNAP protein [In 89.2 0.076 1.6E-06 51.0 -1.2 81 120-208 76-170 (253)
56 COG5236 Uncharacterized conser 89.2 0.2 4.4E-06 51.7 1.7 86 123-215 151-251 (493)
57 PF13909 zf-H2C2_5: C2H2-type 89.2 0.31 6.6E-06 30.5 2.0 22 186-208 1-23 (24)
58 KOG2893 Zn finger protein [Gen 87.4 0.2 4.3E-06 49.3 0.4 44 125-179 12-55 (341)
59 PF13913 zf-C2HC_2: zinc-finge 87.2 0.52 1.1E-05 30.1 2.1 21 83-104 3-23 (25)
60 smart00451 ZnF_U1 U1-like zinc 87.0 0.45 9.8E-06 32.4 1.9 24 82-105 3-26 (35)
61 PF13913 zf-C2HC_2: zinc-finge 87.0 0.43 9.4E-06 30.5 1.7 20 187-207 4-24 (25)
62 KOG2482 Predicted C2H2-type Zn 85.5 0.38 8.3E-06 49.7 1.3 25 81-105 194-218 (423)
63 KOG2785 C2H2-type Zn-finger pr 84.7 0.56 1.2E-05 49.3 2.1 63 82-151 3-89 (390)
64 KOG1883 Cofactor required for 84.6 0.64 1.4E-05 54.8 2.6 7 300-306 1487-1493(1517)
65 KOG4124 Putative transcription 82.3 2.2 4.7E-05 44.5 5.1 25 156-180 396-420 (442)
66 PF09986 DUF2225: Uncharacteri 81.9 0.84 1.8E-05 45.1 2.0 42 156-197 3-61 (214)
67 KOG2893 Zn finger protein [Gen 80.1 0.71 1.5E-05 45.5 0.7 43 83-149 11-53 (341)
68 KOG2186 Cell growth-regulating 78.8 1 2.2E-05 44.9 1.4 46 159-206 4-50 (276)
69 KOG4377 Zn-finger protein [Gen 78.7 3.7 7.9E-05 43.7 5.4 120 81-210 270-429 (480)
70 smart00451 ZnF_U1 U1-like zinc 78.6 1.6 3.5E-05 29.6 2.0 22 185-206 3-25 (35)
71 TIGR00622 ssl1 transcription f 77.7 4.6 9.9E-05 35.7 5.0 48 160-208 57-105 (112)
72 KOG2932 E3 ubiquitin ligase in 74.7 15 0.00033 37.8 8.4 28 181-208 140-171 (389)
73 PRK00464 nrdR transcriptional 72.0 2.1 4.5E-05 40.1 1.5 19 158-176 28-46 (154)
74 KOG2071 mRNA cleavage and poly 71.3 3.1 6.7E-05 46.4 2.8 29 78-106 414-442 (579)
75 KOG1280 Uncharacterized conser 70.8 5.5 0.00012 41.6 4.4 32 156-187 77-109 (381)
76 COG4049 Uncharacterized protei 70.7 2 4.4E-05 32.8 0.9 28 181-208 13-41 (65)
77 KOG4173 Alpha-SNAP protein [In 70.1 0.87 1.9E-05 44.0 -1.5 79 79-180 76-168 (253)
78 COG4049 Uncharacterized protei 69.7 0.94 2E-05 34.6 -1.0 30 153-182 12-42 (65)
79 KOG2482 Predicted C2H2-type Zn 68.3 3 6.6E-05 43.3 1.9 23 186-208 280-303 (423)
80 COG1997 RPL43A Ribosomal prote 63.5 3.7 8.1E-05 34.4 1.2 14 158-171 53-66 (89)
81 cd00350 rubredoxin_like Rubred 62.9 5.5 0.00012 27.1 1.8 10 157-166 16-25 (33)
82 PF12013 DUF3505: Protein of u 62.5 4.8 0.00011 35.1 1.8 23 186-208 81-108 (109)
83 PF02892 zf-BED: BED zinc fing 62.2 5.7 0.00012 28.6 1.9 26 78-103 12-41 (45)
84 PF09538 FYDLN_acid: Protein o 62.1 4.9 0.00011 35.3 1.8 24 82-129 9-32 (108)
85 PRK00464 nrdR transcriptional 60.3 4.9 0.00011 37.6 1.5 42 159-200 1-44 (154)
86 PF04959 ARS2: Arsenite-resist 57.6 1.8 3.8E-05 42.7 -2.0 24 157-180 76-99 (214)
87 TIGR02300 FYDLN_acid conserved 52.6 8.7 0.00019 34.6 1.7 15 157-171 25-39 (129)
88 COG1592 Rubrerythrin [Energy p 52.4 11 0.00023 35.8 2.4 26 121-166 132-157 (166)
89 TIGR01562 FdhE formate dehydro 52.4 15 0.00032 38.3 3.6 12 120-131 207-218 (305)
90 PF09986 DUF2225: Uncharacteri 52.2 7.9 0.00017 38.2 1.6 44 121-171 3-61 (214)
91 smart00614 ZnF_BED BED zinc fi 51.9 9.9 0.00021 28.3 1.7 25 81-105 17-47 (50)
92 PRK09678 DNA-binding transcrip 50.2 7.9 0.00017 31.5 1.0 7 190-196 35-41 (72)
93 KOG4167 Predicted DNA-binding 49.1 14 0.00031 42.3 3.0 27 80-106 790-816 (907)
94 PF09538 FYDLN_acid: Protein o 47.9 11 0.00023 33.2 1.5 15 157-171 25-39 (108)
95 KOG2186 Cell growth-regulating 47.8 6.6 0.00014 39.3 0.2 48 123-180 3-50 (276)
96 KOG4217 Nuclear receptors of t 47.8 24 0.00052 38.5 4.4 12 313-324 144-155 (605)
97 PF04959 ARS2: Arsenite-resist 44.8 10 0.00022 37.5 1.0 29 78-106 73-101 (214)
98 KOG4124 Putative transcription 44.2 6.9 0.00015 40.9 -0.3 67 78-151 345-419 (442)
99 PF13717 zinc_ribbon_4: zinc-r 44.1 15 0.00033 25.6 1.5 10 159-168 26-35 (36)
100 PRK03564 formate dehydrogenase 43.4 21 0.00045 37.3 3.1 36 80-131 185-220 (309)
101 PF06524 NOA36: NOA36 protein; 43.4 15 0.00033 37.0 2.0 21 157-177 208-228 (314)
102 COG1592 Rubrerythrin [Energy p 42.1 15 0.00032 34.9 1.6 24 81-130 133-156 (166)
103 PF05443 ROS_MUCR: ROS/MUCR tr 42.0 19 0.00041 32.8 2.3 27 77-106 67-93 (132)
104 TIGR02098 MJ0042_CXXC MJ0042 f 41.7 15 0.00033 25.5 1.3 15 83-97 3-17 (38)
105 PRK04023 DNA polymerase II lar 41.3 24 0.00051 42.2 3.4 14 78-91 622-635 (1121)
106 KOG4369 RTK signaling protein 41.3 6.3 0.00014 47.1 -1.2 11 328-338 1933-1943(2131)
107 PHA00626 hypothetical protein 41.2 19 0.00042 27.7 1.8 14 157-170 22-35 (59)
108 PTZ00255 60S ribosomal protein 41.0 15 0.00032 31.2 1.3 13 158-170 54-66 (90)
109 COG2888 Predicted Zn-ribbon RN 40.4 26 0.00056 27.4 2.4 14 81-94 26-39 (61)
110 KOG2593 Transcription initiati 39.8 14 0.0003 40.0 1.1 36 155-192 125-161 (436)
111 TIGR00622 ssl1 transcription f 39.2 42 0.00091 29.7 3.9 88 80-181 13-104 (112)
112 TIGR00280 L37a ribosomal prote 38.8 16 0.00035 31.0 1.2 13 158-170 53-65 (91)
113 COG1198 PriA Primosomal protei 38.5 23 0.00049 41.4 2.7 9 157-165 474-482 (730)
114 smart00531 TFIIE Transcription 38.4 20 0.00043 33.1 1.9 22 78-99 95-116 (147)
115 smart00531 TFIIE Transcription 38.2 19 0.00041 33.2 1.7 39 120-169 96-134 (147)
116 cd00729 rubredoxin_SM Rubredox 38.1 25 0.00055 24.1 1.9 10 157-166 17-26 (34)
117 PRK09678 DNA-binding transcrip 36.5 18 0.00039 29.4 1.1 22 154-175 23-46 (72)
118 PF01780 Ribosomal_L37ae: Ribo 35.8 17 0.00037 30.8 0.9 12 159-170 54-65 (90)
119 PF15135 UPF0515: Uncharacteri 35.8 47 0.001 33.4 4.0 77 94-197 91-168 (278)
120 COG3357 Predicted transcriptio 35.4 23 0.0005 30.0 1.6 32 80-134 56-87 (97)
121 COG4957 Predicted transcriptio 35.3 43 0.00093 30.5 3.4 24 80-106 74-97 (148)
122 TIGR02300 FYDLN_acid conserved 35.2 24 0.00053 31.8 1.8 34 158-201 9-43 (129)
123 COG5151 SSL1 RNA polymerase II 35.0 27 0.00058 36.1 2.2 48 160-208 364-412 (421)
124 TIGR02605 CxxC_CxxC_SSSS putat 34.9 22 0.00049 26.4 1.3 10 157-166 25-34 (52)
125 COG1996 RPC10 DNA-directed RNA 34.5 21 0.00046 26.8 1.1 11 157-167 23-33 (49)
126 PRK03976 rpl37ae 50S ribosomal 33.8 21 0.00045 30.4 1.1 13 158-170 54-66 (90)
127 KOG1280 Uncharacterized conser 33.5 45 0.00097 35.1 3.6 28 78-105 75-102 (381)
128 COG3091 SprT Zn-dependent meta 33.4 22 0.00047 33.1 1.2 32 157-193 116-149 (156)
129 PRK00398 rpoP DNA-directed RNA 33.3 28 0.00062 25.3 1.6 12 158-169 21-32 (46)
130 smart00834 CxxC_CXXC_SSSS Puta 33.2 27 0.00059 24.3 1.5 10 157-166 25-34 (41)
131 smart00734 ZnF_Rad18 Rad18-lik 32.7 37 0.0008 21.9 1.9 20 83-103 2-21 (26)
132 PRK14714 DNA polymerase II lar 32.4 37 0.00079 41.6 3.2 9 82-90 667-675 (1337)
133 PRK06266 transcription initiat 32.1 23 0.0005 33.9 1.2 33 120-168 114-146 (178)
134 COG3364 Zn-ribbon containing p 31.8 27 0.00058 30.3 1.4 15 82-96 2-16 (112)
135 KOG4377 Zn-finger protein [Gen 31.7 1.7E+02 0.0037 31.7 7.5 68 120-195 268-360 (480)
136 PRK06266 transcription initiat 31.5 20 0.00043 34.4 0.7 33 156-196 115-148 (178)
137 KOG0608 Warts/lats-like serine 31.1 59 0.0013 37.4 4.2 26 255-280 423-449 (1034)
138 TIGR00373 conserved hypothetic 30.7 20 0.00044 33.6 0.6 9 159-167 129-137 (158)
139 TIGR00373 conserved hypothetic 30.6 25 0.00053 33.0 1.2 37 152-196 103-140 (158)
140 PF09845 DUF2072: Zn-ribbon co 30.4 22 0.00048 32.2 0.8 15 82-96 1-15 (131)
141 PF13719 zinc_ribbon_5: zinc-r 29.2 37 0.0008 23.7 1.6 12 157-168 24-35 (37)
142 KOG2785 C2H2-type Zn-finger pr 28.2 22 0.00048 37.8 0.4 72 124-206 167-242 (390)
143 PF10263 SprT-like: SprT-like 28.1 27 0.00059 32.1 1.0 31 158-195 123-154 (157)
144 COG1571 Predicted DNA-binding 28.0 32 0.00069 37.3 1.6 29 160-198 352-381 (421)
145 PF14353 CpXC: CpXC protein 28.0 19 0.00042 32.2 -0.1 21 158-178 38-58 (128)
146 smart00440 ZnF_C2C2 C2C2 Zinc 27.7 41 0.00088 24.0 1.6 10 159-168 29-38 (40)
147 KOG2593 Transcription initiati 27.3 43 0.00093 36.3 2.3 37 78-130 124-160 (436)
148 KOG0320 Predicted E3 ubiquitin 27.2 27 0.00058 33.4 0.7 12 120-131 128-139 (187)
149 COG4530 Uncharacterized protei 26.9 32 0.0007 30.2 1.1 12 157-168 25-36 (129)
150 PRK14873 primosome assembly pr 26.4 42 0.0009 38.9 2.3 24 155-193 407-431 (665)
151 PF01096 TFIIS_C: Transcriptio 25.7 26 0.00057 24.8 0.3 9 159-167 29-37 (39)
152 smart00731 SprT SprT homologue 25.1 43 0.00093 30.7 1.7 32 158-195 112-144 (146)
153 KOG2807 RNA polymerase II tran 24.9 57 0.0012 34.1 2.6 63 124-207 277-368 (378)
154 COG1198 PriA Primosomal protei 24.3 51 0.0011 38.5 2.4 24 156-193 460-484 (730)
155 KOG0782 Predicted diacylglycer 24.0 30 0.00066 38.6 0.5 52 143-198 238-290 (1004)
156 PRK14873 primosome assembly pr 23.9 52 0.0011 38.1 2.4 11 157-167 421-431 (665)
157 PF12760 Zn_Tnp_IS1595: Transp 23.9 43 0.00093 24.4 1.2 11 156-166 35-45 (46)
158 PF05443 ROS_MUCR: ROS/MUCR tr 23.4 36 0.00077 31.1 0.8 23 186-211 73-96 (132)
159 smart00659 RPOLCX RNA polymera 23.2 60 0.0013 23.7 1.8 13 157-169 18-30 (44)
160 PF15135 UPF0515: Uncharacteri 23.0 47 0.001 33.4 1.5 14 80-93 110-123 (278)
161 COG1327 Predicted transcriptio 22.9 45 0.00097 31.1 1.3 19 157-175 27-45 (156)
162 PRK14890 putative Zn-ribbon RN 22.8 58 0.0013 25.4 1.7 8 122-129 24-31 (59)
163 COG4957 Predicted transcriptio 22.4 39 0.00084 30.8 0.8 24 187-213 78-102 (148)
164 PF09723 Zn-ribbon_8: Zinc rib 22.4 52 0.0011 23.6 1.3 10 157-166 25-34 (42)
165 PF04216 FdhE: Protein involve 21.8 34 0.00074 35.2 0.4 32 159-191 212-245 (290)
166 TIGR00595 priA primosomal prot 21.7 37 0.00081 37.9 0.7 10 157-166 239-248 (505)
167 PF08790 zf-LYAR: LYAR-type C2 21.5 39 0.00085 22.4 0.5 18 160-178 2-19 (28)
168 KOG2636 Splicing factor 3a, su 21.3 53 0.0012 35.7 1.7 30 74-103 393-423 (497)
169 KOG3661 Uncharacterized conser 21.1 1.1E+03 0.023 27.7 11.5 26 325-350 121-146 (1019)
170 PF04810 zf-Sec23_Sec24: Sec23 21.0 52 0.0011 23.3 1.1 19 149-167 15-33 (40)
171 KOG0978 E3 ubiquitin ligase in 20.7 28 0.00061 40.1 -0.5 49 125-178 645-698 (698)
172 COG1655 Uncharacterized protei 20.6 41 0.0009 33.4 0.6 24 157-180 18-41 (267)
173 PF06220 zf-U1: U1 zinc finger 20.3 72 0.0016 22.5 1.7 22 81-102 2-25 (38)
174 COG3677 Transposase and inacti 20.3 58 0.0013 29.5 1.5 18 156-173 51-68 (129)
No 1
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.88 E-value=3.1e-23 Score=203.27 Aligned_cols=131 Identities=22% Similarity=0.414 Sum_probs=105.7
Q ss_pred CCCCCCCCCCCCchhhhcCccccC---CCCccccCCCCCccCChHHHHHHHHhcCCCchhhcccccccCCceeeCCCCCc
Q 008724 55 KKRSLPGNPDPDAEVIALSPKSLM---ATNRFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTC 131 (556)
Q Consensus 55 ~~~~~p~~~~~~~~~~~~~~~~~~---~~k~y~C~~Cgk~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~k~y~C~~C~C 131 (556)
.++.++++......-+..|+..|. ..+.|.|++|+|.|.....|+.|+|+|+ -+++|.+|
T Consensus 131 ~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~---------------l~c~C~iC-- 193 (279)
T KOG2462|consen 131 YKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT---------------LPCECGIC-- 193 (279)
T ss_pred eeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC---------------CCcccccc--
Confidence 344444555555555555555442 3566777777777777777777777775 56788888
Q ss_pred ccCCCCCcccCccchhhhhccccCCcccccccCCccccccccccccccc-cCCcceecc-CCCccCChhHHHHHHhhh
Q 008724 132 VHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAHSKI-CGTREYKCD-CGKLFSRRDSFITHRAFC 207 (556)
Q Consensus 132 ~~~~~~k~F~~~s~L~~H~r~H~~ekpy~C~~Cgk~F~~~s~L~~H~r~-~gekpy~C~-Cgk~F~~~~~L~~H~~~h 207 (556)
||.|.+.+-|+.|+|+|+|||||.|..|+|+|..+++|+.||++ .+.|+|.|. |+|.|.+++.|.+|....
T Consensus 194 -----GKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES~ 266 (279)
T KOG2462|consen 194 -----GKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSESA 266 (279)
T ss_pred -----cccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhhc
Confidence 99999999999999999999999999999999999999999999 688999999 999999999999998753
No 2
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.81 E-value=4.3e-20 Score=181.24 Aligned_cols=124 Identities=20% Similarity=0.474 Sum_probs=109.1
Q ss_pred cCCCCccccCCCCCccCChHHHHHHHHhcCCCchhhcccccccCCceeeCCCCCcccCCCCCcccCccchhhhhccccCC
Q 008724 77 LMATNRFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGE 156 (556)
Q Consensus 77 ~~~~k~y~C~~Cgk~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~~e 156 (556)
.....+|+|..|||.|.+..+|.+|+.+|.- ....+.+.|++| +|.|...-.|+.|+|+|+
T Consensus 125 ~~~~~r~~c~eCgk~ysT~snLsrHkQ~H~~----------~~s~ka~~C~~C-------~K~YvSmpALkMHirTH~-- 185 (279)
T KOG2462|consen 125 AAKHPRYKCPECGKSYSTSSNLSRHKQTHRS----------LDSKKAFSCKYC-------GKVYVSMPALKMHIRTHT-- 185 (279)
T ss_pred cccCCceeccccccccccccccchhhccccc----------ccccccccCCCC-------CceeeehHHHhhHhhccC--
Confidence 3456789999999999999999999999961 114688999999 999999999999999998
Q ss_pred cccccccCCccccccccccccccc-cCCcceecc-CCCccCChhHHHHHHhhhh----chhcccccccc
Q 008724 157 KKWKCEKCSKKYAVQSDWKAHSKI-CGTREYKCD-CGKLFSRRDSFITHRAFCD----VLAEESARTIT 219 (556)
Q Consensus 157 kpy~C~~Cgk~F~~~s~L~~H~r~-~gekpy~C~-Cgk~F~~~~~L~~H~~~h~----~~~~~~~~~~~ 219 (556)
-+++|.+|||.|.+.+.|+.|+|+ +|||||.|. |+|.|..+++|+.|+++|. ..+..+.+.+.
T Consensus 186 l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFs 254 (279)
T KOG2462|consen 186 LPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFA 254 (279)
T ss_pred CCcccccccccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHH
Confidence 679999999999999999999999 999999999 9999999999999999986 33444544443
No 3
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.66 E-value=1.7e-17 Score=155.50 Aligned_cols=113 Identities=24% Similarity=0.528 Sum_probs=104.8
Q ss_pred CCCCccccCCCCCccCChHHHHHHHHhcCCCchhhcccccccCCceeeCCCCCcccCCCCCcccCccchhhhhccccCCc
Q 008724 78 MATNRFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEK 157 (556)
Q Consensus 78 ~~~k~y~C~~Cgk~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~~ek 157 (556)
.....|.|.+|+|.|....-|.+|++.|. ..|.|-|..| +|.|.+.-+|++|+|+|+|.|
T Consensus 113 sd~d~ftCrvCgK~F~lQRmlnrh~kch~-------------~vkr~lct~c-------gkgfndtfdlkrh~rthtgvr 172 (267)
T KOG3576|consen 113 SDQDSFTCRVCGKKFGLQRMLNRHLKCHS-------------DVKRHLCTFC-------GKGFNDTFDLKRHTRTHTGVR 172 (267)
T ss_pred CCCCeeeeehhhhhhhHHHHHHHHhhhcc-------------HHHHHHHhhc-------cCcccchhhhhhhhccccCcc
Confidence 44678999999999999999999999998 7899999999 999999999999999999999
Q ss_pred ccccccCCccccccccccccccc-cC-----------Ccceecc-CCCccCChhHHHHHHhhhhch
Q 008724 158 KWKCEKCSKKYAVQSDWKAHSKI-CG-----------TREYKCD-CGKLFSRRDSFITHRAFCDVL 210 (556)
Q Consensus 158 py~C~~Cgk~F~~~s~L~~H~r~-~g-----------ekpy~C~-Cgk~F~~~~~L~~H~~~h~~~ 210 (556)
||+|..|+|.|+.+-.|..|++. || +|.|.|+ ||.+-.+...+..|++.|+..
T Consensus 173 pykc~~c~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~ 238 (267)
T KOG3576|consen 173 PYKCSLCEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPF 238 (267)
T ss_pred ccchhhhhHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCC
Confidence 99999999999999999999887 75 4679999 999999999999999998743
No 4
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.49 E-value=1.1e-14 Score=159.81 Aligned_cols=58 Identities=21% Similarity=0.499 Sum_probs=54.0
Q ss_pred cccccCCccccccccccccccc-cCCcceecc-CCCccCChhHHHHHHhhhhchhccccc
Q 008724 159 WKCEKCSKKYAVQSDWKAHSKI-CGTREYKCD-CGKLFSRRDSFITHRAFCDVLAEESAR 216 (556)
Q Consensus 159 y~C~~Cgk~F~~~s~L~~H~r~-~gekpy~C~-Cgk~F~~~~~L~~H~~~h~~~~~~~~~ 216 (556)
..|.+|+|.|.....|..|+|+ +++|||.|. |++.|..+..|+.||.+|+.....+.|
T Consensus 880 h~C~vCgk~FsSSsALqiH~rTHtg~KPF~C~fC~~aFttrgnLKvHMgtH~w~q~~srr 939 (958)
T KOG1074|consen 880 HVCNVCGKQFSSSAALEIHMRTHTGPKPFFCHFCEEAFTTRGNLKVHMGTHMWVQPPSRR 939 (958)
T ss_pred hhhccchhcccchHHHHHhhhcCCCCCCccchhhhhhhhhhhhhhhhhccccccCCCccC
Confidence 5699999999999999999999 899999999 999999999999999999877766665
No 5
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.48 E-value=5e-15 Score=159.92 Aligned_cols=106 Identities=25% Similarity=0.564 Sum_probs=95.7
Q ss_pred ccccCCCCCccCChHHHHHHHHhcCCCchhhcccccccCCceeeCCCCCcccCCCCCcccCccchhhhhccccC------
Q 008724 82 RFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHG------ 155 (556)
Q Consensus 82 ~y~C~~Cgk~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~~------ 155 (556)
...|++|.+.|.+...|+.|++..+. ..+..|.|..| .+.|.++..|.+||.+|..
T Consensus 210 lltcpycdrgykrltslkeHikyrhe-----------kne~nfsC~lC-------sytFAyRtQLErhm~~hkpg~dqa~ 271 (1007)
T KOG3623|consen 210 LLTCPYCDRGYKRLTSLKEHIKYRHE-----------KNEPNFSCMLC-------SYTFAYRTQLERHMQLHKPGGDQAI 271 (1007)
T ss_pred hhcchhHHHHHHHHHHHHHHHHHHHh-----------hCCCCCcchhh-------hhhhhhHHHHHHHHHhhcCCCcccc
Confidence 46799999999999999999776541 15667999999 9999999999999999862
Q ss_pred -------CcccccccCCccccccccccccccc-cCCcceecc-CCCccCChhHHHHHHh
Q 008724 156 -------EKKWKCEKCSKKYAVQSDWKAHSKI-CGTREYKCD-CGKLFSRRDSFITHRA 205 (556)
Q Consensus 156 -------ekpy~C~~Cgk~F~~~s~L~~H~r~-~gekpy~C~-Cgk~F~~~~~L~~H~~ 205 (556)
.|+|+|.+|+|.|+.+.+|+.|+|+ .|||||.|. |+|+|+...++..|+.
T Consensus 272 sltqsa~lRKFKCtECgKAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmS 330 (1007)
T KOG3623|consen 272 SLTQSALLRKFKCTECGKAFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMS 330 (1007)
T ss_pred cccchhhhccccccccchhhhhHHHHHhhheeecCCCCcCCcccccccccCCccccccc
Confidence 4789999999999999999999999 799999999 9999999999999984
No 6
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.48 E-value=1.3e-14 Score=159.35 Aligned_cols=51 Identities=24% Similarity=0.594 Sum_probs=48.5
Q ss_pred ccccccCCccccccccccccccc-cCCcceecc-CCCccCChhHHHHHHhhhh
Q 008724 158 KWKCEKCSKKYAVQSDWKAHSKI-CGTREYKCD-CGKLFSRRDSFITHRAFCD 208 (556)
Q Consensus 158 py~C~~Cgk~F~~~s~L~~H~r~-~gekpy~C~-Cgk~F~~~~~L~~H~~~h~ 208 (556)
|-.|-+|.|...-++.|+.|.|+ +|||||+|. ||+.|.++.+|+.|+-+|.
T Consensus 605 PNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHk 657 (958)
T KOG1074|consen 605 PNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHK 657 (958)
T ss_pred ccceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccc
Confidence 45799999999999999999999 899999999 9999999999999999986
No 7
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.35 E-value=2.2e-13 Score=147.42 Aligned_cols=82 Identities=24% Similarity=0.581 Sum_probs=71.3
Q ss_pred CCCccccCCCCCccCChHHHHHHHHhcCCCchhhcccccccCCceeeCCCCCcccCCCCCcccCccchhhhhccccCCcc
Q 008724 79 ATNRFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKK 158 (556)
Q Consensus 79 ~~k~y~C~~Cgk~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~~ekp 158 (556)
....|.|+.|+|.|...+.|.+|.-.|. |.+||.|.+| .|+|+.+.+|..|+|.|.||||
T Consensus 891 e~gmyaCDqCDK~FqKqSSLaRHKYEHs-------------GqRPyqC~iC-------kKAFKHKHHLtEHkRLHSGEKP 950 (1007)
T KOG3623|consen 891 EDGMYACDQCDKAFQKQSSLARHKYEHS-------------GQRPYQCIIC-------KKAFKHKHHLTEHKRLHSGEKP 950 (1007)
T ss_pred ccccchHHHHHHHHHhhHHHHHhhhhhc-------------CCCCcccchh-------hHhhhhhhhhhhhhhhccCCCc
Confidence 3457899999999999999999988887 8899999888 8899999999999999999999
Q ss_pred cccccCCccccccccccccccc
Q 008724 159 WKCEKCSKKYAVQSDWKAHSKI 180 (556)
Q Consensus 159 y~C~~Cgk~F~~~s~L~~H~r~ 180 (556)
|.|+.|+|+|.....+..||..
T Consensus 951 fQCdKClKRFSHSGSYSQHMNH 972 (1007)
T KOG3623|consen 951 FQCDKCLKRFSHSGSYSQHMNH 972 (1007)
T ss_pred chhhhhhhhcccccchHhhhcc
Confidence 9999999999888888888863
No 8
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.29 E-value=4.9e-13 Score=134.66 Aligned_cols=139 Identities=17% Similarity=0.311 Sum_probs=100.9
Q ss_pred CCCCchhhhcCccccCCCCccccCCCCCccCChHHHHHHHHhcC----CCchhhccccc---------cc--CCceeeCC
Q 008724 63 PDPDAEVIALSPKSLMATNRFLCEICNKGFQRDQNLQLHRRGHN----LPWKLKQRTNK---------VE--RKKVYVCP 127 (556)
Q Consensus 63 ~~~~~~~~~~~~~~~~~~k~y~C~~Cgk~F~~~~~L~~H~r~H~----~p~~~~~~~~~---------~~--~~k~y~C~ 127 (556)
.......+..+.+.|..+|...|+.||..|.++..|.-|++..+ .++.|+.+.+. |+ ....|+|+
T Consensus 188 ~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~ykCp 267 (467)
T KOG3608|consen 188 HMGNKYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNCYKCP 267 (467)
T ss_pred hhccHHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhccccc
Confidence 34556678888999999999999999999999999999987664 45555543221 11 33567888
Q ss_pred CCCcccCCCCCcccCccchhhhhc-cccCCcccccccCCccccccccccccccccCCcceecc---CCCccCChhHHHHH
Q 008724 128 EPTCVHHDPSRALGDLTGIKKHFS-RKHGEKKWKCEKCSKKYAVQSDWKAHSKICGTREYKCD---CGKLFSRRDSFITH 203 (556)
Q Consensus 128 ~C~C~~~~~~k~F~~~s~L~~H~r-~H~~ekpy~C~~Cgk~F~~~s~L~~H~r~~gekpy~C~---Cgk~F~~~~~L~~H 203 (556)
.| +......+.|.+|++ +|..+|||+|+.|++.|.+.++|.+|..+|.+--|.|+ |..+|.....+++|
T Consensus 268 lC-------dmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS~~~y~C~h~~C~~s~r~~~q~~~H 340 (467)
T KOG3608|consen 268 LC-------DMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHSKTVYQCEHPDCHYSVRTYTQMRRH 340 (467)
T ss_pred cc-------ccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhccccceecCCCCCcHHHHHHHHHHHH
Confidence 87 777777888888877 56677888888888888888888888777655566664 66666666666666
Q ss_pred Hhhhh
Q 008724 204 RAFCD 208 (556)
Q Consensus 204 ~~~h~ 208 (556)
.+.++
T Consensus 341 ~~evh 345 (467)
T KOG3608|consen 341 FLEVH 345 (467)
T ss_pred HHHhc
Confidence 65544
No 9
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.20 E-value=1.8e-12 Score=121.86 Aligned_cols=82 Identities=26% Similarity=0.511 Sum_probs=78.1
Q ss_pred CCceeeCCCCCcccCCCCCcccCccchhhhhccccCCcccccccCCccccccccccccccc-cCCcceecc-CCCccCCh
Q 008724 120 RKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAHSKI-CGTREYKCD-CGKLFSRR 197 (556)
Q Consensus 120 ~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~~ekpy~C~~Cgk~F~~~s~L~~H~r~-~gekpy~C~-Cgk~F~~~ 197 (556)
+...|.|.+| +|.|....-|.+|++-|...|.|-|..|||.|...-+|++|+|+ +|.+||+|. |+|.|..+
T Consensus 114 d~d~ftCrvC-------gK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqr 186 (267)
T KOG3576|consen 114 DQDSFTCRVC-------GKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQR 186 (267)
T ss_pred CCCeeeeehh-------hhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhh
Confidence 5678999999 99999999999999999999999999999999999999999999 899999999 99999999
Q ss_pred hHHHHHHhhhh
Q 008724 198 DSFITHRAFCD 208 (556)
Q Consensus 198 ~~L~~H~~~h~ 208 (556)
.+|..|.+..|
T Consensus 187 csleshl~kvh 197 (267)
T KOG3576|consen 187 CSLESHLKKVH 197 (267)
T ss_pred ccHHHHHHHHc
Confidence 99999988655
No 10
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.12 E-value=9.7e-12 Score=125.45 Aligned_cols=131 Identities=21% Similarity=0.332 Sum_probs=110.6
Q ss_pred ccCCCCccccCCCCCccCChHHHHHHHHhcCCCchhhc--------------ccccccCCceeeCCCCCcccCCCCCccc
Q 008724 76 SLMATNRFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQ--------------RTNKVERKKVYVCPEPTCVHHDPSRALG 141 (556)
Q Consensus 76 ~~~~~k~y~C~~Cgk~F~~~~~L~~H~r~H~~p~~~~~--------------~~~~~~~~k~y~C~~C~C~~~~~~k~F~ 141 (556)
.....++|.|..|.|.|.++..|+.|++.|...|+|.. ...+|...|+|+|+.| ++.|.
T Consensus 231 t~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~C-------d~~c~ 303 (467)
T KOG3608|consen 231 TELNTNSFQCAQCFKRFATEKLLKSHVVRHVNCYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDEC-------DTRCV 303 (467)
T ss_pred hhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhcccccccccCCCChHHHHHHHHhhhccCCCccccch-------hhhhc
Confidence 44556799999999999999999999999986666532 1234557899999999 99999
Q ss_pred CccchhhhhccccCCccccccc--CCccccccccccccccc-c---CCcceecc-CCCccCChhHHHHHHhhhhchhccc
Q 008724 142 DLTGIKKHFSRKHGEKKWKCEK--CSKKYAVQSDWKAHSKI-C---GTREYKCD-CGKLFSRRDSFITHRAFCDVLAEES 214 (556)
Q Consensus 142 ~~s~L~~H~r~H~~ekpy~C~~--Cgk~F~~~s~L~~H~r~-~---gekpy~C~-Cgk~F~~~~~L~~H~~~h~~~~~~~ 214 (556)
+.+.|.+|...|. +-.|.|+. |..+|.....+++|++. | .+-+|.|. |.+.|.+..+|.+|+...|....+.
T Consensus 304 ~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~kkH~f~~Ps 382 (467)
T KOG3608|consen 304 RESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTSGKSLSAHLMKKHGFRLPS 382 (467)
T ss_pred cHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhhccchhHHHHHHHhhcccCCC
Confidence 9999999999988 77899988 99999999999999998 5 34679999 9999999999999987766544443
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.10 E-value=8.5e-11 Score=128.62 Aligned_cols=104 Identities=22% Similarity=0.467 Sum_probs=89.4
Q ss_pred CCccccCCCCCccCChHHHHHHHHhcCCCchhhcccccccCCceeeCCCCCcccCCCCCcccCccchhhhhccccCCccc
Q 008724 80 TNRFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKW 159 (556)
Q Consensus 80 ~k~y~C~~Cgk~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~~ekpy 159 (556)
++.+.|++|++.|. ...|+.|++.|+ ++|.|+ | ++.+ .+..|..|+++|..+|++
T Consensus 451 ~~H~~C~~Cgk~f~-~s~LekH~~~~H---------------kpv~Cp-C-------g~~~-~R~~L~~H~~thCp~Kpi 505 (567)
T PLN03086 451 KNHVHCEKCGQAFQ-QGEMEKHMKVFH---------------EPLQCP-C-------GVVL-EKEQMVQHQASTCPLRLI 505 (567)
T ss_pred ccCccCCCCCCccc-hHHHHHHHHhcC---------------CCccCC-C-------CCCc-chhHHHhhhhccCCCCce
Confidence 45678999999996 688999999876 679998 7 7655 668999999999999999
Q ss_pred ccccCCccccc----------cccccccccccCCcceecc-CCCccCChhHHHHHHhhhhc
Q 008724 160 KCEKCSKKYAV----------QSDWKAHSKICGTREYKCD-CGKLFSRRDSFITHRAFCDV 209 (556)
Q Consensus 160 ~C~~Cgk~F~~----------~s~L~~H~r~~gekpy~C~-Cgk~F~~~~~L~~H~~~h~~ 209 (556)
.|.+|++.|.. ...|..|+.++|.+++.|. |++.|..+ .|..|+..+|.
T Consensus 506 ~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~CG~rt~~C~~Cgk~Vrlr-dm~~H~~~~h~ 565 (567)
T PLN03086 506 TCRFCGDMVQAGGSAMDVRDRLRGMSEHESICGSRTAPCDSCGRSVMLK-EMDIHQIAVHQ 565 (567)
T ss_pred eCCCCCCccccCccccchhhhhhhHHHHHHhcCCcceEccccCCeeeeh-hHHHHHHHhhc
Confidence 99999999952 3479999999999999999 99999887 57889887764
No 12
>PHA00733 hypothetical protein
Probab=98.80 E-value=1.6e-09 Score=97.90 Aligned_cols=83 Identities=16% Similarity=0.285 Sum_probs=68.0
Q ss_pred CCceeeCCCCCcccCCCCCcccCccchhh------hhccccCCcccccccCCccccccccccccccccCCcceecc-CCC
Q 008724 120 RKKVYVCPEPTCVHHDPSRALGDLTGIKK------HFSRKHGEKKWKCEKCSKKYAVQSDWKAHSKICGTREYKCD-CGK 192 (556)
Q Consensus 120 ~~k~y~C~~C~C~~~~~~k~F~~~s~L~~------H~r~H~~ekpy~C~~Cgk~F~~~s~L~~H~r~~gekpy~C~-Cgk 192 (556)
..+++.|.+| .+.|.....|.. |+. ++++++|.|+.|++.|.....|..|++.+ +++|.|. |++
T Consensus 37 ~~~~~~~~~~-------~~~~~~~~~l~~~~~l~~~~~-~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h-~~~~~C~~CgK 107 (128)
T PHA00733 37 EQKRLIRAVV-------KTLIYNPQLLDESSYLYKLLT-SKAVSPYVCPLCLMPFSSSVSLKQHIRYT-EHSKVCPVCGK 107 (128)
T ss_pred hhhhHHHHHH-------hhhccChhhhcchHHHHhhcc-cCCCCCccCCCCCCcCCCHHHHHHHHhcC-CcCccCCCCCC
Confidence 4678999998 666666555444 433 34589999999999999999999999875 5689999 999
Q ss_pred ccCChhHHHHHHhhhhchh
Q 008724 193 LFSRRDSFITHRAFCDVLA 211 (556)
Q Consensus 193 ~F~~~~~L~~H~~~h~~~~ 211 (556)
.|.....|.+|+...|..+
T Consensus 108 ~F~~~~sL~~H~~~~h~~~ 126 (128)
T PHA00733 108 EFRNTDSTLDHVCKKHNIC 126 (128)
T ss_pred ccCCHHHHHHHHHHhcCcc
Confidence 9999999999998877654
No 13
>PHA00733 hypothetical protein
Probab=98.75 E-value=2.7e-09 Score=96.46 Aligned_cols=96 Identities=16% Similarity=0.154 Sum_probs=76.5
Q ss_pred hhhhcCccccCCCCccccCCCCCccCChHHHHHH--HHhcCCCchhhcccccccCCceeeCCCCCcccCCCCCcccCccc
Q 008724 68 EVIALSPKSLMATNRFLCEICNKGFQRDQNLQLH--RRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDLTG 145 (556)
Q Consensus 68 ~~~~~~~~~~~~~k~y~C~~Cgk~F~~~~~L~~H--~r~H~~p~~~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~ 145 (556)
+.+..........++++|.+|.+.|.....|..| .+.|. .....++|.|+.| ++.|.....
T Consensus 26 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~----------~~~~~kPy~C~~C-------gk~Fss~s~ 88 (128)
T PHA00733 26 EELKRYHSLTPEQKRLIRAVVKTLIYNPQLLDESSYLYKLL----------TSKAVSPYVCPLC-------LMPFSSSVS 88 (128)
T ss_pred HHhhhhhcCChhhhhHHHHHHhhhccChhhhcchHHHHhhc----------ccCCCCCccCCCC-------CCcCCCHHH
Confidence 3444444444557899999999999998888777 22221 1125789999999 999999999
Q ss_pred hhhhhccccCCcccccccCCccccccccccccccc-cC
Q 008724 146 IKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAHSKI-CG 182 (556)
Q Consensus 146 L~~H~r~H~~ekpy~C~~Cgk~F~~~s~L~~H~r~-~g 182 (556)
|..|++.| +++|.|.+|++.|.....|.+|++. |+
T Consensus 89 L~~H~r~h--~~~~~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 89 LKQHIRYT--EHSKVCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred HHHHHhcC--CcCccCCCCCCccCCHHHHHHHHHHhcC
Confidence 99999987 4679999999999999999999987 64
No 14
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.75 E-value=1.8e-09 Score=111.60 Aligned_cols=152 Identities=16% Similarity=0.195 Sum_probs=113.4
Q ss_pred CCCCCCCCCCCCCCchhhhcCccccCCCCccccCCCCCccCChHHHHHHHHhcCCCchhh------------------c-
Q 008724 53 SKKKRSLPGNPDPDAEVIALSPKSLMATNRFLCEICNKGFQRDQNLQLHRRGHNLPWKLK------------------Q- 113 (556)
Q Consensus 53 ~k~~~~~p~~~~~~~~~~~~~~~~~~~~k~y~C~~Cgk~F~~~~~L~~H~r~H~~p~~~~------------------~- 113 (556)
....+.++...+.|.-.++.|+-...-..-|+|++|+|+|.+..+|..|+|+|.-..+.. +
T Consensus 266 GdyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea 345 (500)
T KOG3993|consen 266 GDYICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEA 345 (500)
T ss_pred HHHHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhc
Confidence 344566777778888888888888777788999999999999999999999996111100 0
Q ss_pred -ccccccCCceeeCCCCCcccCCCCCcccCccchhhhhccccCC---c--------------------------------
Q 008724 114 -RTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGE---K-------------------------------- 157 (556)
Q Consensus 114 -~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~~e---k-------------------------------- 157 (556)
+.........|.|.+| +|.|.+...|++|..+|+.. +
T Consensus 346 ~rsg~dss~gi~~C~~C-------~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g 418 (500)
T KOG3993|consen 346 ERSGDDSSSGIFSCHTC-------GKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHG 418 (500)
T ss_pred cccCCcccCceeecHHh-------hhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccccccccc
Confidence 0001123347999999 99999999999998887621 0
Q ss_pred -----------ccccccCCccccccccccccccc-cCCcceecc-CCCccCChhHHHHHHhhhhchh
Q 008724 158 -----------KWKCEKCSKKYAVQSDWKAHSKI-CGTREYKCD-CGKLFSRRDSFITHRAFCDVLA 211 (556)
Q Consensus 158 -----------py~C~~Cgk~F~~~s~L~~H~r~-~gekpy~C~-Cgk~F~~~~~L~~H~~~h~~~~ 211 (556)
...|++|+-.+..+..--.|.|. +.+.-|.|. |.-.|.....|.+|+..||...
T Consensus 419 ~~vl~~a~sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~Hpse 485 (500)
T KOG3993|consen 419 DEVLYVAGSAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCHPSE 485 (500)
T ss_pred cceeeeeccccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcChHH
Confidence 12356666666666666666666 666779999 9999999999999999988433
No 15
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.51 E-value=1.2e-07 Score=104.08 Aligned_cols=115 Identities=18% Similarity=0.345 Sum_probs=87.8
Q ss_pred ccccCCCCCccCChHHHHHHHHhcCC-Cc-----hhhcccccccCCceeeCCCCCcccCCCCCcccCccchhhhhccccC
Q 008724 82 RFLCEICNKGFQRDQNLQLHRRGHNL-PW-----KLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHG 155 (556)
Q Consensus 82 ~y~C~~Cgk~F~~~~~L~~H~r~H~~-p~-----~~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~~ 155 (556)
.-.|..|.+... ..+|..|...... .. .|.....+...++.+.|+.| ++.|. ...|..|++.|+
T Consensus 407 ~V~C~NC~~~i~-l~~l~lHe~~C~r~~V~Cp~~~Cg~v~~r~el~~H~~C~~C-------gk~f~-~s~LekH~~~~H- 476 (567)
T PLN03086 407 TVECRNCKHYIP-SRSIALHEAYCSRHNVVCPHDGCGIVLRVEEAKNHVHCEKC-------GQAFQ-QGEMEKHMKVFH- 476 (567)
T ss_pred eEECCCCCCccc-hhHHHHHHhhCCCcceeCCcccccceeeccccccCccCCCC-------CCccc-hHHHHHHHHhcC-
Confidence 457999988654 5677888755431 11 24444444456677899999 88886 678999999986
Q ss_pred CcccccccCCccccccccccccccc-cCCcceecc-CCCccCC----------hhHHHHHHhhhhc
Q 008724 156 EKKWKCEKCSKKYAVQSDWKAHSKI-CGTREYKCD-CGKLFSR----------RDSFITHRAFCDV 209 (556)
Q Consensus 156 ekpy~C~~Cgk~F~~~s~L~~H~r~-~gekpy~C~-Cgk~F~~----------~~~L~~H~~~h~~ 209 (556)
++|.|+ |++.+ .+..|..|+++ +.+|++.|. |++.|.. ...|..|...|..
T Consensus 477 -kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~CG~ 539 (567)
T PLN03086 477 -EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESICGS 539 (567)
T ss_pred -CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhcCC
Confidence 889999 99866 66899999998 899999999 9999952 3579999988753
No 16
>PHA02768 hypothetical protein; Provisional
Probab=98.35 E-value=2.6e-07 Score=70.30 Aligned_cols=45 Identities=18% Similarity=0.261 Sum_probs=40.0
Q ss_pred ccccCCCCCccCChHHHHHHHHhcCCCchhhcccccccCCceeeCCCCCcccCCCCCcccCccchhh
Q 008724 82 RFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKK 148 (556)
Q Consensus 82 ~y~C~~Cgk~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~ 148 (556)
.|+|++|||.|.+..+|..|+++|. ++|+|..| ++.|...+.|..
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~---------------k~~kc~~C-------~k~f~~~s~l~~ 49 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN---------------TNLKLSNC-------KRISLRTGEYIE 49 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC---------------CcccCCcc-------cceecccceeEE
Confidence 5899999999999999999999996 68899988 899988877653
No 17
>PHA02768 hypothetical protein; Provisional
Probab=98.34 E-value=1.6e-07 Score=71.40 Aligned_cols=43 Identities=14% Similarity=0.322 Sum_probs=31.6
Q ss_pred eeCCCCCcccCCCCCcccCccchhhhhccccCCcccccccCCcccccccccc
Q 008724 124 YVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWK 175 (556)
Q Consensus 124 y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~~ekpy~C~~Cgk~F~~~s~L~ 175 (556)
|.|++| ++.|.....|.+|+++|+ ++|+|..|+|.|.+.+.|.
T Consensus 6 y~C~~C-------GK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 6 YECPIC-------GEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred cCcchh-------CCeeccHHHHHHHHHhcC--CcccCCcccceecccceeE
Confidence 677777 777777777777777777 5777777777777766664
No 18
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.18 E-value=2.5e-07 Score=96.03 Aligned_cols=82 Identities=20% Similarity=0.462 Sum_probs=68.2
Q ss_pred eeeCCCCCcccCCCCCcccCccchhhhhccccCCcccccccCCccccccccccccccccCCc------------------
Q 008724 123 VYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAHSKICGTR------------------ 184 (556)
Q Consensus 123 ~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~~ekpy~C~~Cgk~F~~~s~L~~H~r~~gek------------------ 184 (556)
.|.|..| ...|.+.-.|.+|....--.-.|+|.+|+|.|.-..+|..|+|+|..|
T Consensus 267 dyiCqLC-------K~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~r 339 (500)
T KOG3993|consen 267 DYICQLC-------KEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETR 339 (500)
T ss_pred HHHHHHH-------HHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhh
Confidence 4899998 788888889999986443334599999999999999999999986321
Q ss_pred ----------------ceecc-CCCccCChhHHHHHHhhhhchh
Q 008724 185 ----------------EYKCD-CGKLFSRRDSFITHRAFCDVLA 211 (556)
Q Consensus 185 ----------------py~C~-Cgk~F~~~~~L~~H~~~h~~~~ 211 (556)
.|.|. |+|.|.+...|++|+.+|+...
T Consensus 340 ae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~ 383 (500)
T KOG3993|consen 340 AEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAP 383 (500)
T ss_pred hhhhhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccc
Confidence 28999 9999999999999999987544
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=98.15 E-value=5.3e-07 Score=58.46 Aligned_cols=26 Identities=31% Similarity=0.824 Sum_probs=23.2
Q ss_pred chhhhhccccCCcccccccCCccccc
Q 008724 145 GIKKHFSRKHGEKKWKCEKCSKKYAV 170 (556)
Q Consensus 145 ~L~~H~r~H~~ekpy~C~~Cgk~F~~ 170 (556)
+|.+|+++|+++|||.|++|++.|.+
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 47899999999999999999999863
No 20
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.83 E-value=8.6e-06 Score=81.97 Aligned_cols=28 Identities=29% Similarity=0.631 Sum_probs=24.0
Q ss_pred CCceeeCCCCCcccCCCCCcccCccchhhhhcc
Q 008724 120 RKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSR 152 (556)
Q Consensus 120 ~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~ 152 (556)
.+|||+|++-+| .|.|+....|+.|+.-
T Consensus 346 d~KpykCpV~gC-----~K~YknqnGLKYH~lh 373 (423)
T COG5189 346 DGKPYKCPVEGC-----NKKYKNQNGLKYHMLH 373 (423)
T ss_pred cCceecCCCCCc-----hhhhccccchhhhhhc
Confidence 568999999888 8999999999998764
No 21
>PHA00616 hypothetical protein
Probab=97.53 E-value=3.1e-05 Score=56.28 Aligned_cols=34 Identities=12% Similarity=0.251 Sum_probs=31.3
Q ss_pred ccccCCCCCccCChHHHHHHHHhcCCCchhhcccccccCCceeeCCC
Q 008724 82 RFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPE 128 (556)
Q Consensus 82 ~y~C~~Cgk~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~k~y~C~~ 128 (556)
+|+|..||+.|..+..|.+|++.|+ +++++.|+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~h-------------g~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVH-------------KQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhc-------------CCCccceeE
Confidence 5899999999999999999999998 888888864
No 22
>PHA00732 hypothetical protein
Probab=97.51 E-value=8.1e-05 Score=61.58 Aligned_cols=23 Identities=30% Similarity=0.405 Sum_probs=15.4
Q ss_pred ccccCCCCCccCChHHHHHHHHh
Q 008724 82 RFLCEICNKGFQRDQNLQLHRRG 104 (556)
Q Consensus 82 ~y~C~~Cgk~F~~~~~L~~H~r~ 104 (556)
+|.|+.|++.|.....|+.|++.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~ 23 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARR 23 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhc
Confidence 36677777777777777777664
No 23
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.40 E-value=0.00022 Score=72.09 Aligned_cols=74 Identities=24% Similarity=0.526 Sum_probs=45.8
Q ss_pred CCCCccccCC--CCCccCChHHHHHHHHhcCCCchhhcccccccCCceeeCCCCCcccCCCCCcccCccchhhhhccccC
Q 008724 78 MATNRFLCEI--CNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHG 155 (556)
Q Consensus 78 ~~~k~y~C~~--Cgk~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~~ 155 (556)
..+|+|+|++ |.|.|+....|+.|+.--+. ..+...-+.. +.-..| -..
T Consensus 345 ~d~KpykCpV~gC~K~YknqnGLKYH~lhGH~------------~~~~~~~p~p-----~~~~~F------------~~~ 395 (423)
T COG5189 345 KDGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQ------------NQKLHENPSP-----EKMNIF------------SAK 395 (423)
T ss_pred ecCceecCCCCCchhhhccccchhhhhhcccc------------CcccCCCCCc-----cccccc------------ccc
Confidence 3469999987 99999999999999643220 1111111111 001222 223
Q ss_pred CcccccccCCccccccccccccccc
Q 008724 156 EKKWKCEKCSKKYAVQSDWKAHSKI 180 (556)
Q Consensus 156 ekpy~C~~Cgk~F~~~s~L~~H~r~ 180 (556)
.|||+|++|+|+|+....|+-|++.
T Consensus 396 ~KPYrCevC~KRYKNlNGLKYHr~H 420 (423)
T COG5189 396 DKPYRCEVCDKRYKNLNGLKYHRKH 420 (423)
T ss_pred CCceeccccchhhccCccceecccc
Confidence 5778888888887777777777654
No 24
>PHA00732 hypothetical protein
Probab=97.37 E-value=9e-05 Score=61.33 Aligned_cols=45 Identities=27% Similarity=0.434 Sum_probs=36.9
Q ss_pred eeeCCCCCcccCCCCCcccCccchhhhhcc-ccCCcccccccCCccccccccccccccc
Q 008724 123 VYVCPEPTCVHHDPSRALGDLTGIKKHFSR-KHGEKKWKCEKCSKKYAVQSDWKAHSKI 180 (556)
Q Consensus 123 ~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~-H~~ekpy~C~~Cgk~F~~~s~L~~H~r~ 180 (556)
+|.|..| ++.|.....|..|++. |. ++.|+.|++.|. .|..|+++
T Consensus 1 py~C~~C-------gk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~ 46 (79)
T PHA00732 1 MFKCPIC-------GFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFYS 46 (79)
T ss_pred CccCCCC-------CCccCCHHHHHHHhhcccC---CCccCCCCCEeC---Chhhhhcc
Confidence 4788888 8999999999999985 54 368999999997 57888866
No 25
>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=97.29 E-value=0.00022 Score=54.56 Aligned_cols=52 Identities=25% Similarity=0.448 Sum_probs=35.5
Q ss_pred ccccCCCCCccCChHHHHHHHHhcCCCchhhcccccccCCceeeCCCCCcccCCCCCcccCccchhhhhcccc
Q 008724 82 RFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKH 154 (556)
Q Consensus 82 ~y~C~~Cgk~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~ 154 (556)
.|.|++|++ ..+...|..|....+.. ..+.+.|++| ...+. .+|..|+..++
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~-----------~~~~v~CPiC-------~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRS-----------ESKNVVCPIC-------SSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcC-----------CCCCccCCCc-------hhhhh--hHHHHHHHHhc
Confidence 588999999 45567899996654411 3456888888 55433 37888877655
No 26
>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=97.22 E-value=0.00016 Score=45.09 Aligned_cols=23 Identities=43% Similarity=0.902 Sum_probs=21.6
Q ss_pred cccCCCCCccCChHHHHHHHHhc
Q 008724 83 FLCEICNKGFQRDQNLQLHRRGH 105 (556)
Q Consensus 83 y~C~~Cgk~F~~~~~L~~H~r~H 105 (556)
|+|++|++.|.+...|+.|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 78999999999999999999875
No 27
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=97.19 E-value=0.00018 Score=46.58 Aligned_cols=25 Identities=36% Similarity=0.655 Sum_probs=22.7
Q ss_pred HHHHHHHhcCCCchhhcccccccCCceeeCCCCCcccCCCCCccc
Q 008724 97 NLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALG 141 (556)
Q Consensus 97 ~L~~H~r~H~~p~~~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F~ 141 (556)
+|.+|+++|. ++++|.|++| ++.|.
T Consensus 1 ~l~~H~~~H~-------------~~k~~~C~~C-------~k~F~ 25 (26)
T PF13465_consen 1 NLRRHMRTHT-------------GEKPYKCPYC-------GKSFS 25 (26)
T ss_dssp HHHHHHHHHS-------------SSSSEEESSS-------SEEES
T ss_pred CHHHHhhhcC-------------CCCCCCCCCC-------cCeeC
Confidence 5899999998 9999999999 88885
No 28
>PHA00616 hypothetical protein
Probab=97.13 E-value=6.8e-05 Score=54.51 Aligned_cols=35 Identities=17% Similarity=0.260 Sum_probs=26.6
Q ss_pred eeeCCCCCcccCCCCCcccCccchhhhhccccCCcccccccC
Q 008724 123 VYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKC 164 (556)
Q Consensus 123 ~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~~ekpy~C~~C 164 (556)
+|+|+.| |+.|..+..|.+|++.|++++++.|+.-
T Consensus 1 pYqC~~C-------G~~F~~~s~l~~H~r~~hg~~~~~~~~~ 35 (44)
T PHA00616 1 MYQCLRC-------GGIFRKKKEVIEHLLSVHKQNKLTLEYF 35 (44)
T ss_pred CCccchh-------hHHHhhHHHHHHHHHHhcCCCccceeEE
Confidence 4677777 7788888888888888888877777654
No 29
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=96.75 E-value=0.00086 Score=41.73 Aligned_cols=22 Identities=41% Similarity=0.803 Sum_probs=16.6
Q ss_pred eecc-CCCccCChhHHHHHHhhh
Q 008724 186 YKCD-CGKLFSRRDSFITHRAFC 207 (556)
Q Consensus 186 y~C~-Cgk~F~~~~~L~~H~~~h 207 (556)
|+|. |++.|.++..|.+|++.|
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 6777 888888888888887763
No 30
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=96.73 E-value=0.001 Score=41.28 Aligned_cols=24 Identities=42% Similarity=0.899 Sum_probs=20.2
Q ss_pred cccCCCCCccCChHHHHHHHHhcC
Q 008724 83 FLCEICNKGFQRDQNLQLHRRGHN 106 (556)
Q Consensus 83 y~C~~Cgk~F~~~~~L~~H~r~H~ 106 (556)
|.|++|++.|.....|+.|++.|+
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 789999999999999999998764
No 31
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=96.62 E-value=0.00084 Score=51.37 Aligned_cols=47 Identities=19% Similarity=0.362 Sum_probs=22.8
Q ss_pred eeCCCCCcccCCCCCcccCccchhhhhcc-ccCC-cccccccCCccccccccccccccc
Q 008724 124 YVCPEPTCVHHDPSRALGDLTGIKKHFSR-KHGE-KKWKCEKCSKKYAVQSDWKAHSKI 180 (556)
Q Consensus 124 y~C~~C~C~~~~~~k~F~~~s~L~~H~r~-H~~e-kpy~C~~Cgk~F~~~s~L~~H~r~ 180 (556)
|.|++| ++ ..+...|..|... |..+ +.+.|++|...+. .+|.+|++.
T Consensus 3 f~CP~C-------~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~ 51 (54)
T PF05605_consen 3 FTCPYC-------GK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNS 51 (54)
T ss_pred cCCCCC-------CC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHH
Confidence 556665 55 2334456666543 2222 3456666655433 255555444
No 32
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.57 E-value=0.0011 Score=74.26 Aligned_cols=24 Identities=33% Similarity=0.750 Sum_probs=16.9
Q ss_pred cccCCCCCcc---------------CChHHHHHHHHhcC
Q 008724 83 FLCEICNKGF---------------QRDQNLQLHRRGHN 106 (556)
Q Consensus 83 y~C~~Cgk~F---------------~~~~~L~~H~r~H~ 106 (556)
+.|.+|++.| .....|+.|++..+
T Consensus 100 ~~C~~C~~~~~~~~~~~~~~~c~~~~s~~~Lk~H~~~~H 138 (669)
T KOG2231|consen 100 HSCHICDRRFRALYNKKECLHCTEFKSVENLKNHMRDQH 138 (669)
T ss_pred hhcCccccchhhhcccCCCccccchhHHHHHHHHHHHhh
Confidence 6677777666 36788999985544
No 33
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=96.38 E-value=0.0019 Score=41.87 Aligned_cols=25 Identities=36% Similarity=0.699 Sum_probs=23.4
Q ss_pred ccccCCCCCccCChHHHHHHHHhcC
Q 008724 82 RFLCEICNKGFQRDQNLQLHRRGHN 106 (556)
Q Consensus 82 ~y~C~~Cgk~F~~~~~L~~H~r~H~ 106 (556)
+|+|..|++.|.....|..|++.|.
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 5899999999999999999998885
No 34
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.34 E-value=0.0023 Score=54.32 Aligned_cols=73 Identities=16% Similarity=0.252 Sum_probs=21.6
Q ss_pred eCCCCCcccCCCCCcccCccchhhhhccccCCcccccccCCccccccccccccccccCCcceecc-CCCccCChhHHHHH
Q 008724 125 VCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAHSKICGTREYKCD-CGKLFSRRDSFITH 203 (556)
Q Consensus 125 ~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~~ekpy~C~~Cgk~F~~~s~L~~H~r~~gekpy~C~-Cgk~F~~~~~L~~H 203 (556)
.|..| +..|.....|..|+...|+...- ..+.+.....+..+.+..-...+.|. |++.|.....|..|
T Consensus 1 ~C~~C-------~~~f~~~~~l~~H~~~~H~~~~~----~~~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~~l~~H 69 (100)
T PF12756_consen 1 QCLFC-------DESFSSVDDLLQHMKKKHGFDIP----DQKYLVDPNRLLNYLRKKVKESFRCPYCNKTFRSREALQEH 69 (100)
T ss_dssp -----------------------------------------------------------SSEEBSSSS-EESSHHHHHHH
T ss_pred Ccccc-------ccccccccccccccccccccccc----cccccccccccccccccccCCCCCCCccCCCCcCHHHHHHH
Confidence 36666 89999999999999877653211 11222344445555544333479999 99999999999999
Q ss_pred Hhhhh
Q 008724 204 RAFCD 208 (556)
Q Consensus 204 ~~~h~ 208 (556)
++.++
T Consensus 70 m~~~~ 74 (100)
T PF12756_consen 70 MRSKH 74 (100)
T ss_dssp HHHTT
T ss_pred HcCcc
Confidence 99754
No 35
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.23 E-value=0.0011 Score=56.28 Aligned_cols=72 Identities=18% Similarity=0.421 Sum_probs=18.2
Q ss_pred ccCCCCCccCChHHHHHHHHhcCCCchhhcccccccCCceeeCCCCCcccCCCCCcccCccchhhhhccccCCccccccc
Q 008724 84 LCEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEK 163 (556)
Q Consensus 84 ~C~~Cgk~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~~ekpy~C~~ 163 (556)
+|.+|+..|.....|..|+...+. - .... ...+.....+..+.+... ...|.|.+
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~-------------~---~~~~--------~~~l~~~~~~~~~~~~~~-~~~~~C~~ 55 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHG-------------F---DIPD--------QKYLVDPNRLLNYLRKKV-KESFRCPY 55 (100)
T ss_dssp -------------------------------------------------------------------------SSEEBSS
T ss_pred Cccccccccccccccccccccccc-------------c---cccc--------cccccccccccccccccc-CCCCCCCc
Confidence 599999999999999999865541 0 1110 111222233333333221 22578888
Q ss_pred CCccccccccccccccc
Q 008724 164 CSKKYAVQSDWKAHSKI 180 (556)
Q Consensus 164 Cgk~F~~~s~L~~H~r~ 180 (556)
|++.|.....|..|++.
T Consensus 56 C~~~f~s~~~l~~Hm~~ 72 (100)
T PF12756_consen 56 CNKTFRSREALQEHMRS 72 (100)
T ss_dssp SS-EESSHHHHHHHHHH
T ss_pred cCCCCcCHHHHHHHHcC
Confidence 88888888888888876
No 36
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=96.19 E-value=0.0035 Score=38.77 Aligned_cols=23 Identities=26% Similarity=0.678 Sum_probs=15.9
Q ss_pred eecc-CCCccCChhHHHHHHhhhh
Q 008724 186 YKCD-CGKLFSRRDSFITHRAFCD 208 (556)
Q Consensus 186 y~C~-Cgk~F~~~~~L~~H~~~h~ 208 (556)
|.|+ |++.|.+...|.+|++.+|
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 5777 8888888888888877664
No 37
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=96.05 E-value=0.0033 Score=40.65 Aligned_cols=24 Identities=33% Similarity=0.704 Sum_probs=18.6
Q ss_pred ceecc-CCCccCChhHHHHHHhhhh
Q 008724 185 EYKCD-CGKLFSRRDSFITHRAFCD 208 (556)
Q Consensus 185 py~C~-Cgk~F~~~~~L~~H~~~h~ 208 (556)
+|.|. |++.|.....|..|++.|.
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 57787 8888888888888887764
No 38
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=95.99 E-value=0.0046 Score=73.15 Aligned_cols=123 Identities=15% Similarity=0.185 Sum_probs=87.4
Q ss_pred CCCCccccCCCCCccCChHHHHHHHHhcC---CCchhhc---------ccccccCCceeeCCCCCcccCCCCCcccCccc
Q 008724 78 MATNRFLCEICNKGFQRDQNLQLHRRGHN---LPWKLKQ---------RTNKVERKKVYVCPEPTCVHHDPSRALGDLTG 145 (556)
Q Consensus 78 ~~~k~y~C~~Cgk~F~~~~~L~~H~r~H~---~p~~~~~---------~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~ 145 (556)
...|.|+|+.|+..|+....|..|+|.-+ ....|+- ......+.++|.|..| ...+..+.+
T Consensus 461 S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C-------~~stttng~ 533 (1406)
T KOG1146|consen 461 SFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRAC-------NYSTTTNGN 533 (1406)
T ss_pred cccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceee-------eeeeecchH
Confidence 34588999999999999999999998833 1111110 1112236678889888 889999889
Q ss_pred hhhhhcc--ccC-----------------------------------------CcccccccCCccccccccccccccc--
Q 008724 146 IKKHFSR--KHG-----------------------------------------EKKWKCEKCSKKYAVQSDWKAHSKI-- 180 (556)
Q Consensus 146 L~~H~r~--H~~-----------------------------------------ekpy~C~~Cgk~F~~~s~L~~H~r~-- 180 (556)
|.+|+.. |.. +-.|.|.+|++.-....+|+.||..
T Consensus 534 LsihlqS~~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~ags~~pktkP~~~C~vc~yetniarnlrihmtss~ 613 (1406)
T KOG1146|consen 534 LSIHLQSDLHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSAGSSGPKTKPSWRCEVCSYETNIARNLRIHMTASP 613 (1406)
T ss_pred HHHHHHHHhhHHHHHHHHhccccchhhhhhhhcccCcccccCCCCCCCCCCCCCCCcchhhhcchhhhhhccccccccCC
Confidence 9888763 210 1248899999988888899999887
Q ss_pred cCCcceecc-CCCccCChhHHHHHHhhh
Q 008724 181 CGTREYKCD-CGKLFSRRDSFITHRAFC 207 (556)
Q Consensus 181 ~gekpy~C~-Cgk~F~~~~~L~~H~~~h 207 (556)
|-..|..|. |+-.+..-..+..+.+.+
T Consensus 614 ~s~~p~~~Lq~~it~~l~~~~~~~~~lp 641 (1406)
T KOG1146|consen 614 SSSPPSLVLQQNITSSLASLLGGQGRLP 641 (1406)
T ss_pred CCCChHHHhhhcchhhccccccCcCCCC
Confidence 333447777 877777776666666554
No 39
>smart00355 ZnF_C2H2 zinc finger.
Probab=95.60 E-value=0.0092 Score=37.33 Aligned_cols=24 Identities=33% Similarity=0.667 Sum_probs=22.1
Q ss_pred cccCCCCCccCChHHHHHHHHhcC
Q 008724 83 FLCEICNKGFQRDQNLQLHRRGHN 106 (556)
Q Consensus 83 y~C~~Cgk~F~~~~~L~~H~r~H~ 106 (556)
|+|..|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 689999999999999999998774
No 40
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.52 E-value=0.0073 Score=61.91 Aligned_cols=112 Identities=15% Similarity=0.277 Sum_probs=73.9
Q ss_pred ccccCC--CCCccCChHHHHHHHHhcCCCchhhcccccccCCceeeCCCCCcccCCCCCcc------cCccchhhhhccc
Q 008724 82 RFLCEI--CNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRAL------GDLTGIKKHFSRK 153 (556)
Q Consensus 82 ~y~C~~--Cgk~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F------~~~s~L~~H~r~H 153 (556)
.|.|+. |.........|+.|.+..+. .+.|.+|- ...+.| -++..|..|...-
T Consensus 151 ~F~CP~skc~~~C~~~k~lk~H~K~~H~---------------~~~C~~C~----~nKk~F~~E~~lF~~~~Lr~H~~~G 211 (493)
T COG5236 151 SFKCPKSKCHRRCGSLKELKKHYKAQHG---------------FVLCSECI----GNKKDFWNEIRLFRSSTLRDHKNGG 211 (493)
T ss_pred HhcCCchhhhhhhhhHHHHHHHHHhhcC---------------cEEhHhhh----cCcccCccceeeeecccccccccCC
Confidence 477865 66666667789999776552 24555541 112222 2345566676543
Q ss_pred cCCcc----cccccCCccccccccccccccccCCcceecc-CC----CccCChhHHHHHHhhhhchhc
Q 008724 154 HGEKK----WKCEKCSKKYAVQSDWKAHSKICGTREYKCD-CG----KLFSRRDSFITHRAFCDVLAE 212 (556)
Q Consensus 154 ~~ekp----y~C~~Cgk~F~~~s~L~~H~r~~gekpy~C~-Cg----k~F~~~~~L~~H~~~h~~~~~ 212 (556)
..+.- -.|..|.+.|...+.|.+|+|...|+-|.|+ -+ .=|.....|.+|-+.-|.++.
T Consensus 212 ~~e~GFKGHP~C~FC~~~FYdDDEL~~HcR~~HE~ChICD~v~p~~~QYFK~Y~~Le~HF~~~hy~ct 279 (493)
T COG5236 212 LEEEGFKGHPLCIFCKIYFYDDDELRRHCRLRHEACHICDMVGPIRYQYFKSYEDLEAHFRNAHYCCT 279 (493)
T ss_pred ccccCcCCCchhhhccceecChHHHHHHHHhhhhhhhhhhccCccchhhhhCHHHHHHHhhcCceEEE
Confidence 33322 3599999999999999999998667777776 43 337888899999887665543
No 41
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=95.43 E-value=0.034 Score=58.91 Aligned_cols=137 Identities=19% Similarity=0.239 Sum_probs=83.3
Q ss_pred CCCCCCchhhhcCcc--ccCCC--CccccC--CCCCccCChHHHHHHHHhcCCC--chhhc-------------------
Q 008724 61 GNPDPDAEVIALSPK--SLMAT--NRFLCE--ICNKGFQRDQNLQLHRRGHNLP--WKLKQ------------------- 113 (556)
Q Consensus 61 ~~~~~~~~~~~~~~~--~~~~~--k~y~C~--~Cgk~F~~~~~L~~H~r~H~~p--~~~~~------------------- 113 (556)
.........+..+.+ .|..+ +++.|+ .|++.|.+...+..|...|... .++..
T Consensus 296 ~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 375 (467)
T COG5048 296 NISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLLNNEPPQSL 375 (467)
T ss_pred cCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCccccccccCCCCccch
Confidence 333344445556666 78888 999999 7999999999999999888721 11110
Q ss_pred -ccccccCCceeeCCCCCcccCCCCCcccCccchhhhhccccCCc--ccccccCCcccccccccccccccc-CCcceecc
Q 008724 114 -RTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEK--KWKCEKCSKKYAVQSDWKAHSKIC-GTREYKCD 189 (556)
Q Consensus 114 -~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~~ek--py~C~~Cgk~F~~~s~L~~H~r~~-gekpy~C~ 189 (556)
........+.+.|..-.| .+.+.....+..|...|...+ .+.|..|.+.|.....+..|++.+ ...++.|.
T Consensus 376 ~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 450 (467)
T COG5048 376 QQYKDLKNDKKSETLSNSC-----IRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHTNHAPLLCS 450 (467)
T ss_pred hhccCccCCccccccccch-----hhhhccccccccccccccccCCcCCCCCcchhhccCcccccccccccccCCceeec
Confidence 000011223344443333 566666777777777776655 355567888888888888887773 33444444
Q ss_pred CCCccCChhHHHH
Q 008724 190 CGKLFSRRDSFIT 202 (556)
Q Consensus 190 Cgk~F~~~~~L~~ 202 (556)
+-+.|.....+..
T Consensus 451 ~~~~~~~~~~~~~ 463 (467)
T COG5048 451 ILKSFRRDLDLSN 463 (467)
T ss_pred cccccchhhhhhc
Confidence 4455554444443
No 42
>PRK04860 hypothetical protein; Provisional
Probab=95.16 E-value=0.011 Score=55.69 Aligned_cols=28 Identities=18% Similarity=0.560 Sum_probs=14.3
Q ss_pred ccchhhhhccccCCcccccccCCccccc
Q 008724 143 LTGIKKHFSRKHGEKKWKCEKCSKKYAV 170 (556)
Q Consensus 143 ~s~L~~H~r~H~~ekpy~C~~Cgk~F~~ 170 (556)
...+.+|.++|.++++|+|..|++.|..
T Consensus 128 ~~~~rrH~ri~~g~~~YrC~~C~~~l~~ 155 (160)
T PRK04860 128 QLTVRRHNRVVRGEAVYRCRRCGETLVF 155 (160)
T ss_pred eCHHHHHHHHhcCCccEECCCCCceeEE
Confidence 3444555555555555555555555443
No 43
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=94.55 E-value=0.031 Score=59.13 Aligned_cols=107 Identities=19% Similarity=0.238 Sum_probs=73.2
Q ss_pred CccccCCCCCccCChHHHHHHHH--hcCCCchhhcccccccCC--ceeeCC--CCCcccCCCCCcccCccchhhhhcccc
Q 008724 81 NRFLCEICNKGFQRDQNLQLHRR--GHNLPWKLKQRTNKVERK--KVYVCP--EPTCVHHDPSRALGDLTGIKKHFSRKH 154 (556)
Q Consensus 81 k~y~C~~Cgk~F~~~~~L~~H~r--~H~~p~~~~~~~~~~~~~--k~y~C~--~C~C~~~~~~k~F~~~s~L~~H~r~H~ 154 (556)
.++.|..|.+.|.....|.+|.+ .|. .+ +++.|+ .| ++.|.+...+..|...|.
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~-------------~~~~~~~~~p~~~~-------~~~~~~~~~~~~~~~~~~ 347 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHS-------------GESLKPFSCPYSLC-------GKLFSRNDALKRHILLHT 347 (467)
T ss_pred cCCCCccccCCccccccccccccccccc-------------cccCCceeeeccCC-------CccccccccccCCccccc
Confidence 57899999999999999999988 676 67 899998 57 899999999999999999
Q ss_pred CCccccccc--CCcccccccccccc----cc-c-cCCcceecc---CCCccCChhHHHHHHhhh
Q 008724 155 GEKKWKCEK--CSKKYAVQSDWKAH----SK-I-CGTREYKCD---CGKLFSRRDSFITHRAFC 207 (556)
Q Consensus 155 ~ekpy~C~~--Cgk~F~~~s~L~~H----~r-~-~gekpy~C~---Cgk~F~~~~~L~~H~~~h 207 (556)
+.+++.|.. |.+.+.....-..+ .. . ...+.+.|. |.+.+.+...+..|...+
T Consensus 348 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 411 (467)
T COG5048 348 SISPAKEKLLNSSSKFSPLLNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITH 411 (467)
T ss_pred CCCccccccccCccccccccCCCCccchhhccCccCCccccccccchhhhhccccccccccccc
Confidence 887777744 55544444331111 11 1 334445553 555555555555554443
No 44
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=94.37 E-value=0.011 Score=44.09 Aligned_cols=30 Identities=17% Similarity=0.284 Sum_probs=13.8
Q ss_pred CcccccccCCccccccccccccccc-cCCcc
Q 008724 156 EKKWKCEKCSKKYAVQSDWKAHSKI-CGTRE 185 (556)
Q Consensus 156 ekpy~C~~Cgk~F~~~s~L~~H~r~-~gekp 185 (556)
+.|-.|++|+..+....+|++|+.+ |+.||
T Consensus 22 ~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 22 EQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp S--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred CCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 4555566666666666666666555 55443
No 45
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=94.24 E-value=0.023 Score=35.89 Aligned_cols=23 Identities=43% Similarity=0.996 Sum_probs=21.2
Q ss_pred cccCCCCCccCChHHHHHHHHhc
Q 008724 83 FLCEICNKGFQRDQNLQLHRRGH 105 (556)
Q Consensus 83 y~C~~Cgk~F~~~~~L~~H~r~H 105 (556)
|.|++|++.|.+...|+.|++.+
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 68999999999999999998765
No 46
>smart00355 ZnF_C2H2 zinc finger.
Probab=94.13 E-value=0.032 Score=34.78 Aligned_cols=22 Identities=32% Similarity=0.842 Sum_probs=18.2
Q ss_pred eecc-CCCccCChhHHHHHHhhh
Q 008724 186 YKCD-CGKLFSRRDSFITHRAFC 207 (556)
Q Consensus 186 y~C~-Cgk~F~~~~~L~~H~~~h 207 (556)
|.|. |++.|.....|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 5788 888888888888888855
No 47
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=93.05 E-value=0.035 Score=66.02 Aligned_cols=78 Identities=17% Similarity=0.230 Sum_probs=54.8
Q ss_pred CCceeeCCCCCcccCCCCCcccCccchhhhhccccCCcccccccCCccccccccccccccc-cCCcceecc-CCCccCCh
Q 008724 120 RKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAHSKI-CGTREYKCD-CGKLFSRR 197 (556)
Q Consensus 120 ~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~~ekpy~C~~Cgk~F~~~s~L~~H~r~-~gekpy~C~-Cgk~F~~~ 197 (556)
..|.|+|+.| +..|+....|..|||..|-+-.- .+|. .+.....+.+=... .+.++|.|. |...|..+
T Consensus 462 ~~kt~~cpkc-------~~~yk~a~~L~vhmRskhp~~~~--~~c~-~gq~~~~~arg~~~~~~~~p~~C~~C~~stttn 531 (1406)
T KOG1146|consen 462 FFKTLKCPKC-------NWHYKLAQTLGVHMRSKHPESQS--AYCK-AGQNHPRLARGEVYRCPGKPYPCRACNYSTTTN 531 (1406)
T ss_pred ccccccCCcc-------chhhhhHHHhhhcccccccccch--hHhH-hccccccccccccccCCCCcccceeeeeeeecc
Confidence 4588999999 89999999999999975433211 3332 22222222221222 677999999 99999999
Q ss_pred hHHHHHHhhh
Q 008724 198 DSFITHRAFC 207 (556)
Q Consensus 198 ~~L~~H~~~h 207 (556)
..|.+|+..+
T Consensus 532 g~LsihlqS~ 541 (1406)
T KOG1146|consen 532 GNLSIHLQSD 541 (1406)
T ss_pred hHHHHHHHHH
Confidence 9999999764
No 48
>PRK04860 hypothetical protein; Provisional
Probab=92.92 E-value=0.065 Score=50.44 Aligned_cols=39 Identities=21% Similarity=0.385 Sum_probs=33.0
Q ss_pred CccccCCCCCccCChHHHHHHHHhcCCCchhhcccccccCCceeeCCCCCcccCCCCCcccCc
Q 008724 81 NRFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDL 143 (556)
Q Consensus 81 k~y~C~~Cgk~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~ 143 (556)
-+|.|. |++ ....+++|.++|. ++++|.|..| +..|...
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~-------------g~~~YrC~~C-------~~~l~~~ 156 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVR-------------GEAVYRCRRC-------GETLVFK 156 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhc-------------CCccEECCCC-------CceeEEe
Confidence 479998 998 6678999999998 8899999999 6666543
No 49
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=92.80 E-value=0.11 Score=39.04 Aligned_cols=29 Identities=21% Similarity=0.392 Sum_probs=20.9
Q ss_pred CCCCccccCCCCCccCChHHHHHHHHhcC
Q 008724 78 MATNRFLCEICNKGFQRDQNLQLHRRGHN 106 (556)
Q Consensus 78 ~~~k~y~C~~Cgk~F~~~~~L~~H~r~H~ 106 (556)
..+.+-.|++|+..+....+|++|+..++
T Consensus 20 ~S~~PatCP~C~a~~~~srnLrRHle~~H 48 (54)
T PF09237_consen 20 QSEQPATCPICGAVIRQSRNLRRHLEIRH 48 (54)
T ss_dssp TTS--EE-TTT--EESSHHHHHHHHHHHT
T ss_pred ccCCCCCCCcchhhccchhhHHHHHHHHh
Confidence 44578899999999999999999997766
No 50
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=92.47 E-value=0.039 Score=35.78 Aligned_cols=24 Identities=29% Similarity=0.803 Sum_probs=20.7
Q ss_pred ccccCCCCCccCChHHHHHHHHhc
Q 008724 82 RFLCEICNKGFQRDQNLQLHRRGH 105 (556)
Q Consensus 82 ~y~C~~Cgk~F~~~~~L~~H~r~H 105 (556)
.|.|..|++.|.+...|..|++..
T Consensus 1 q~~C~~C~k~f~~~~~~~~H~~sk 24 (27)
T PF12171_consen 1 QFYCDACDKYFSSENQLKQHMKSK 24 (27)
T ss_dssp -CBBTTTTBBBSSHHHHHCCTTSH
T ss_pred CCCcccCCCCcCCHHHHHHHHccC
Confidence 378999999999999999997653
No 51
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.63 E-value=0.084 Score=59.61 Aligned_cols=98 Identities=18% Similarity=0.226 Sum_probs=58.1
Q ss_pred cCCCCCccCChHHHHHHHHhcCCCchhhcccccccCCceeeCCCCCcccCCCCCcccCccchhhhhccccCCcccccccC
Q 008724 85 CEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKC 164 (556)
Q Consensus 85 C~~Cgk~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~~ekpy~C~~C 164 (556)
|..|.|.|. ...|..|++.-. + +. ..+.+ .-.|..| ...|-....|.+|++.++ |.|..|
T Consensus 153 f~~e~k~Yt-~~el~~h~~~gd-~--d~---~s~rG--hp~C~~C-------~~~fld~~el~rH~~~~h----~~chfC 212 (669)
T KOG2231|consen 153 FINERKLYT-RAELNLHLMFGD-P--DD---ESCRG--HPLCKFC-------HERFLDDDELYRHLRFDH----EFCHFC 212 (669)
T ss_pred eeeeeeheh-HHHHHHHHhcCC-C--cc---ccccC--Cccchhh-------hhhhccHHHHHHhhccce----eheeec
Confidence 444556554 566777765432 0 00 00001 2467777 888999999999998776 667777
Q ss_pred C------ccccccccccccccccCCcceecc---CC-CccCChhHHHHHHh
Q 008724 165 S------KKYAVQSDWKAHSKICGTREYKCD---CG-KLFSRRDSFITHRA 205 (556)
Q Consensus 165 g------k~F~~~s~L~~H~r~~gekpy~C~---Cg-k~F~~~~~L~~H~~ 205 (556)
. ..|....+|..|.|. .-|.|+ |. +.|..-..+..|++
T Consensus 213 ~~~~~~neyy~~~~dLe~HfR~---~HflCE~~~C~~~~f~~~~~~ei~lk 260 (669)
T KOG2231|consen 213 DYKTGQNEYYNDYDDLEEHFRK---GHFLCEEEFCRTKKFYVAFELEIELK 260 (669)
T ss_pred CcccccchhcccchHHHHHhhh---cCccccccccccceeeehhHHHHHHH
Confidence 4 456677788888876 225664 53 33444334444443
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=90.46 E-value=0.095 Score=33.95 Aligned_cols=22 Identities=27% Similarity=0.688 Sum_probs=15.3
Q ss_pred cccccCCccccccccccccccc
Q 008724 159 WKCEKCSKKYAVQSDWKAHSKI 180 (556)
Q Consensus 159 y~C~~Cgk~F~~~s~L~~H~r~ 180 (556)
|.|..|++.|.....|..|++.
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCcccCCCCcCCHHHHHHHHcc
Confidence 5677777777777777777654
No 53
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=90.29 E-value=0.18 Score=31.77 Aligned_cols=22 Identities=36% Similarity=0.655 Sum_probs=15.9
Q ss_pred eecc-CCCccCChhHHHHHHhhh
Q 008724 186 YKCD-CGKLFSRRDSFITHRAFC 207 (556)
Q Consensus 186 y~C~-Cgk~F~~~~~L~~H~~~h 207 (556)
|.|+ |++.|.....|..|++.+
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 5677 777777777777777643
No 54
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=89.81 E-value=0.19 Score=31.46 Aligned_cols=23 Identities=26% Similarity=0.595 Sum_probs=18.5
Q ss_pred cccCCCCCccCChHHHHHHHHhcC
Q 008724 83 FLCEICNKGFQRDQNLQLHRRGHN 106 (556)
Q Consensus 83 y~C~~Cgk~F~~~~~L~~H~r~H~ 106 (556)
|+|+.|..... +..|.+|++.|+
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 78999999888 999999998764
No 55
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=89.19 E-value=0.076 Score=51.05 Aligned_cols=81 Identities=21% Similarity=0.495 Sum_probs=65.8
Q ss_pred CCceeeCCCCCcccCCCCCcccCccchhhhhccccCCcccccccCCccccccccccccccc-c----------CCcceec
Q 008724 120 RKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAHSKI-C----------GTREYKC 188 (556)
Q Consensus 120 ~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~~ekpy~C~~Cgk~F~~~s~L~~H~r~-~----------gekpy~C 188 (556)
....|.|.+-|| -+.|.....+..|..+-|+. .|.+|.+.|.+...|..|+.. | |..-|.|
T Consensus 76 ~~~~~~cqvagc-----~~~~d~lD~~E~hY~~~h~~---sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~C 147 (253)
T KOG4173|consen 76 RVPAFACQVAGC-----CQVFDALDDYEHHYHTLHGN---SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQC 147 (253)
T ss_pred ccccccccccch-----HHHHhhhhhHHHhhhhcccc---hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHH
Confidence 446688999887 78898888888888765553 799999999999999999875 4 4456999
Q ss_pred --c-CCCccCChhHHHHHHhhhh
Q 008724 189 --D-CGKLFSRRDSFITHRAFCD 208 (556)
Q Consensus 189 --~-Cgk~F~~~~~L~~H~~~h~ 208 (556)
+ |+..|.+...-++|+-.-|
T Consensus 148 lvEgCt~KFkT~r~RkdH~I~~H 170 (253)
T KOG4173|consen 148 LVEGCTEKFKTSRDRKDHMIRMH 170 (253)
T ss_pred HHHhhhhhhhhhhhhhhHHHHhc
Confidence 4 9999999999999975443
No 56
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=89.17 E-value=0.2 Score=51.69 Aligned_cols=86 Identities=24% Similarity=0.498 Sum_probs=62.0
Q ss_pred eeeCCCCCcccCCCCCcccCccchhhhhccccCCcccccccCC---cccc------ccccccccccc-cCCcce----ec
Q 008724 123 VYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCS---KKYA------VQSDWKAHSKI-CGTREY----KC 188 (556)
Q Consensus 123 ~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~~ekpy~C~~Cg---k~F~------~~s~L~~H~r~-~gekpy----~C 188 (556)
.|.|+.-.| .........|+.|.+..|+. +.|.+|- +.|. ++..|+.|... -.+.-| .|
T Consensus 151 ~F~CP~skc-----~~~C~~~k~lk~H~K~~H~~--~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFKGHP~C 223 (493)
T COG5236 151 SFKCPKSKC-----HRRCGSLKELKKHYKAQHGF--VLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLC 223 (493)
T ss_pred HhcCCchhh-----hhhhhhHHHHHHHHHhhcCc--EEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchh
Confidence 478887655 67777788999999977653 6787774 3444 45667777766 222222 59
Q ss_pred c-CCCccCChhHHHHHHhhhhchhcccc
Q 008724 189 D-CGKLFSRRDSFITHRAFCDVLAEESA 215 (556)
Q Consensus 189 ~-Cgk~F~~~~~L~~H~~~h~~~~~~~~ 215 (556)
. |.+.|..-+.|.+|.+..|..+..+.
T Consensus 224 ~FC~~~FYdDDEL~~HcR~~HE~ChICD 251 (493)
T COG5236 224 IFCKIYFYDDDELRRHCRLRHEACHICD 251 (493)
T ss_pred hhccceecChHHHHHHHHhhhhhhhhhh
Confidence 9 99999999999999998776555553
No 57
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=89.15 E-value=0.31 Score=30.48 Aligned_cols=22 Identities=27% Similarity=0.495 Sum_probs=15.3
Q ss_pred eecc-CCCccCChhHHHHHHhhhh
Q 008724 186 YKCD-CGKLFSRRDSFITHRAFCD 208 (556)
Q Consensus 186 y~C~-Cgk~F~~~~~L~~H~~~h~ 208 (556)
|+|. |..... +..|.+|++.++
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 6787 887777 778888887765
No 58
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=87.35 E-value=0.2 Score=49.26 Aligned_cols=44 Identities=25% Similarity=0.350 Sum_probs=36.0
Q ss_pred eCCCCCcccCCCCCcccCccchhhhhccccCCcccccccCCcccccccccccccc
Q 008724 125 VCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAHSK 179 (556)
Q Consensus 125 ~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~~ekpy~C~~Cgk~F~~~s~L~~H~r 179 (556)
.|.+| ++.|....-|..|++. |.|+|.+|.|...+--.|..|..
T Consensus 12 wcwyc-------nrefddekiliqhqka----khfkchichkkl~sgpglsihcm 55 (341)
T KOG2893|consen 12 WCWYC-------NREFDDEKILIQHQKA----KHFKCHICHKKLFSGPGLSIHCM 55 (341)
T ss_pred eeeec-------ccccchhhhhhhhhhh----ccceeeeehhhhccCCCceeehh
Confidence 58888 9999999999988875 44999999988877778888743
No 59
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=87.17 E-value=0.52 Score=30.13 Aligned_cols=21 Identities=29% Similarity=0.672 Sum_probs=18.0
Q ss_pred cccCCCCCccCChHHHHHHHHh
Q 008724 83 FLCEICNKGFQRDQNLQLHRRG 104 (556)
Q Consensus 83 y~C~~Cgk~F~~~~~L~~H~r~ 104 (556)
..|+.||+.| ....|.+|+..
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 5799999999 67889999764
No 60
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=87.02 E-value=0.45 Score=32.36 Aligned_cols=24 Identities=29% Similarity=0.811 Sum_probs=21.2
Q ss_pred ccccCCCCCccCChHHHHHHHHhc
Q 008724 82 RFLCEICNKGFQRDQNLQLHRRGH 105 (556)
Q Consensus 82 ~y~C~~Cgk~F~~~~~L~~H~r~H 105 (556)
+|.|++|++.|.....+..|++..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~gk 26 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKGK 26 (35)
T ss_pred CeEccccCCccCCHHHHHHHHChH
Confidence 588999999999999999997643
No 61
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=87.01 E-value=0.43 Score=30.50 Aligned_cols=20 Identities=35% Similarity=0.961 Sum_probs=14.1
Q ss_pred ecc-CCCccCChhHHHHHHhhh
Q 008724 187 KCD-CGKLFSRRDSFITHRAFC 207 (556)
Q Consensus 187 ~C~-Cgk~F~~~~~L~~H~~~h 207 (556)
.|. ||+.| ..+.|.+|++.|
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~~C 24 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEKIC 24 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHHhc
Confidence 577 77777 566777777665
No 62
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=85.47 E-value=0.38 Score=49.70 Aligned_cols=25 Identities=32% Similarity=0.608 Sum_probs=22.4
Q ss_pred CccccCCCCCccCChHHHHHHHHhc
Q 008724 81 NRFLCEICNKGFQRDQNLQLHRRGH 105 (556)
Q Consensus 81 k~y~C~~Cgk~F~~~~~L~~H~r~H 105 (556)
.++.|-+|.|.|+.+..|+.|||.-
T Consensus 194 ~r~~CLyCekifrdkntLkeHMrkK 218 (423)
T KOG2482|consen 194 ERLRCLYCEKIFRDKNTLKEHMRKK 218 (423)
T ss_pred hhheeeeeccccCCcHHHHHHHHhc
Confidence 4689999999999999999998754
No 63
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=84.69 E-value=0.56 Score=49.33 Aligned_cols=63 Identities=21% Similarity=0.433 Sum_probs=40.9
Q ss_pred ccccCCCCCccCChHHHHHHHHhcCCCchhhc-----------------------cc-ccccCCceeeCCCCCcccCCCC
Q 008724 82 RFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQ-----------------------RT-NKVERKKVYVCPEPTCVHHDPS 137 (556)
Q Consensus 82 ~y~C~~Cgk~F~~~~~L~~H~r~H~~p~~~~~-----------------------~~-~~~~~~k~y~C~~C~C~~~~~~ 137 (556)
-|.|.-|...|.....-+.|+++--..|-++. .. .....+-++.|..| .
T Consensus 3 ~ftC~tC~v~F~~ad~Qr~HyKSdWHRYNLKRkVA~lPPItaE~F~~k~~s~~~~~~~~~e~~~~~~~c~~c-------~ 75 (390)
T KOG2785|consen 3 GFTCNTCNVEFDDADEQRAHYKSDWHRYNLKRKVASLPPITAEEFNEKVLSDDSEKEENLEEAESVVYCEAC-------N 75 (390)
T ss_pred cceeeceeeeeccHHHHHHHhhhhHHHhhHHhHhhcCCCcCHHHHhHHHhhhhhhhhhhhhhcccceehHHh-------h
Confidence 48999999999999888999765321111110 00 11335678999999 8
Q ss_pred CcccCccchhhhhc
Q 008724 138 RALGDLTGIKKHFS 151 (556)
Q Consensus 138 k~F~~~s~L~~H~r 151 (556)
+.|........|++
T Consensus 76 k~~~s~~a~~~hl~ 89 (390)
T KOG2785|consen 76 KSFASPKAHENHLK 89 (390)
T ss_pred ccccChhhHHHHHH
Confidence 88877655555543
No 64
>KOG1883 consensus Cofactor required for Sp1 transcriptional activation, subunit 3 [Transcription]
Probab=84.55 E-value=0.64 Score=54.82 Aligned_cols=7 Identities=14% Similarity=-0.035 Sum_probs=3.2
Q ss_pred ccccccC
Q 008724 300 LHNENQS 306 (556)
Q Consensus 300 ~~~~~~~ 306 (556)
.+|-.+|
T Consensus 1487 ~qHmqqH 1493 (1517)
T KOG1883|consen 1487 GQHMQQH 1493 (1517)
T ss_pred HHHHHhc
Confidence 4444444
No 65
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=82.32 E-value=2.2 Score=44.48 Aligned_cols=25 Identities=36% Similarity=0.692 Sum_probs=16.9
Q ss_pred CcccccccCCccccccccccccccc
Q 008724 156 EKKWKCEKCSKKYAVQSDWKAHSKI 180 (556)
Q Consensus 156 ekpy~C~~Cgk~F~~~s~L~~H~r~ 180 (556)
.|+|+|++|.++++....|+-|+..
T Consensus 396 nk~~r~~i~~~~~k~~~~l~~~~~~ 420 (442)
T KOG4124|consen 396 NKPYRCEVCSKRYKNLNGLKYHRTH 420 (442)
T ss_pred cCcccChhhhhhhccCCCCCceeeh
Confidence 4677788887777776666655443
No 66
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=81.86 E-value=0.84 Score=45.07 Aligned_cols=42 Identities=21% Similarity=0.540 Sum_probs=27.3
Q ss_pred CcccccccCCccccccccccccccc-c----------CCcc-----eecc-CCCccCCh
Q 008724 156 EKKWKCEKCSKKYAVQSDWKAHSKI-C----------GTRE-----YKCD-CGKLFSRR 197 (556)
Q Consensus 156 ekpy~C~~Cgk~F~~~s~L~~H~r~-~----------gekp-----y~C~-Cgk~F~~~ 197 (556)
+|.+.|++|++.|..+.-+....|. . +..| ..|+ ||.+|...
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 3567788888888777666555543 1 2223 5799 99887755
No 67
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=80.07 E-value=0.71 Score=45.51 Aligned_cols=43 Identities=23% Similarity=0.439 Sum_probs=33.0
Q ss_pred cccCCCCCccCChHHHHHHHHhcCCCchhhcccccccCCceeeCCCCCcccCCCCCcccCccchhhh
Q 008724 83 FLCEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKH 149 (556)
Q Consensus 83 y~C~~Cgk~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H 149 (556)
-.|-+|++.|..+.-|..|++.. .|+|.+| .|.+-.--.|..|
T Consensus 11 pwcwycnrefddekiliqhqkak-----------------hfkchic-------hkkl~sgpglsih 53 (341)
T KOG2893|consen 11 PWCWYCNREFDDEKILIQHQKAK-----------------HFKCHIC-------HKKLFSGPGLSIH 53 (341)
T ss_pred ceeeecccccchhhhhhhhhhhc-----------------cceeeee-------hhhhccCCCceee
Confidence 35999999999999999997654 4899998 5555455556655
No 68
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=78.76 E-value=1 Score=44.95 Aligned_cols=46 Identities=26% Similarity=0.647 Sum_probs=32.3
Q ss_pred cccccCCccccccccccccccccCCcceecc-CCCccCChhHHHHHHhh
Q 008724 159 WKCEKCSKKYAVQSDWKAHSKICGTREYKCD-CGKLFSRRDSFITHRAF 206 (556)
Q Consensus 159 y~C~~Cgk~F~~~s~L~~H~r~~gekpy~C~-Cgk~F~~~~~L~~H~~~ 206 (556)
|.|..||.... +..+.+|+..+...-|.|- |++.|.+ .++..|...
T Consensus 4 FtCnvCgEsvK-Kp~vekH~srCrn~~fSCIDC~k~F~~-~sYknH~kC 50 (276)
T KOG2186|consen 4 FTCNVCGESVK-KPQVEKHMSRCRNAYFSCIDCGKTFER-VSYKNHTKC 50 (276)
T ss_pred Eehhhhhhhcc-ccchHHHHHhccCCeeEEeeccccccc-chhhhhhhh
Confidence 67888877654 4456678777444778887 8888887 667777653
No 69
>KOG4377 consensus Zn-finger protein [General function prediction only]
Probab=78.70 E-value=3.7 Score=43.75 Aligned_cols=120 Identities=15% Similarity=0.313 Sum_probs=71.0
Q ss_pred Ccccc--CCCCCccCChHHHHHHHHhcCCCch-hhcccccccCCceeeCCCCCcccCCCCCcccCccchhhhhccccCC-
Q 008724 81 NRFLC--EICNKGFQRDQNLQLHRRGHNLPWK-LKQRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGE- 156 (556)
Q Consensus 81 k~y~C--~~Cgk~F~~~~~L~~H~r~H~~p~~-~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~~e- 156 (556)
.-|.| ++|+..+-.+..+.+|..+|.+... +..-. +.-...|.|..-+| .+ +-++...|-.-|+..
T Consensus 270 Ehyhcl~e~C~ykr~~k~DvirH~~~hkkrdnsL~dgf--~rfs~syhC~~~~C-----~k---sTsdV~~h~nFht~~~ 339 (480)
T KOG4377|consen 270 EHYHCLNEYCFYKRGQKNDVIRHVEIHKKRDNSLIDGF--HRFSNSYHCTGQIC-----EK---STSDVLLHDNFHTDKR 339 (480)
T ss_pred hhhcccCccccccccchhhhHHHHHHHhhcccccccch--hhcCccchhhhccc-----Cc---ccccccccCccccccc
Confidence 45777 5698887779999999998862110 00000 00112356654444 66 445566676666532
Q ss_pred ------cccccccCC--ccccccccccccccc-cCC----c--------------------ceecc---CCCccCChhHH
Q 008724 157 ------KKWKCEKCS--KKYAVQSDWKAHSKI-CGT----R--------------------EYKCD---CGKLFSRRDSF 200 (556)
Q Consensus 157 ------kpy~C~~Cg--k~F~~~s~L~~H~r~-~ge----k--------------------py~C~---Cgk~F~~~~~L 200 (556)
..|.|..|+ ..|+....-..|.+- -++ + -|.|. |+.+|...+.+
T Consensus 340 n~GfrrthfhC~r~gCTdtfK~~khk~yh~kdda~~~dGfkkf~k~e~cay~gCkys~~cnhfhc~r~Gc~~tl~s~sqm 419 (480)
T KOG4377|consen 340 NNGFRRTHFHCQRIGCTDTFKDSKHKPYHYKDDAGEIDGFKKFFKDENCAYTGCKYSGICNHFHCDRLGCEATLYSVSQM 419 (480)
T ss_pred cCceecceeEEeccCCccccccccccccccCcchhhhhhhhhhhccccCCccCcccccceeeeeecccCCceEEEehhhh
Confidence 247787766 555533333333331 111 1 15675 99999999999
Q ss_pred HHHHhhhhch
Q 008724 201 ITHRAFCDVL 210 (556)
Q Consensus 201 ~~H~~~h~~~ 210 (556)
..|.+.|+..
T Consensus 420 ~shkrkheRq 429 (480)
T KOG4377|consen 420 ASHKRKHERQ 429 (480)
T ss_pred hhhhhhhhhh
Confidence 9999999855
No 70
>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=78.64 E-value=1.6 Score=29.59 Aligned_cols=22 Identities=23% Similarity=0.400 Sum_probs=18.4
Q ss_pred ceecc-CCCccCChhHHHHHHhh
Q 008724 185 EYKCD-CGKLFSRRDSFITHRAF 206 (556)
Q Consensus 185 py~C~-Cgk~F~~~~~L~~H~~~ 206 (556)
+|.|+ |++.|.....+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 57898 99999988888888764
No 71
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=77.68 E-value=4.6 Score=35.69 Aligned_cols=48 Identities=15% Similarity=0.346 Sum_probs=28.5
Q ss_pred ccccCCccccccccccccccccCCcceecc-CCCccCChhHHHHHHhhhh
Q 008724 160 KCEKCSKKYAVQSDWKAHSKICGTREYKCD-CGKLFSRRDSFITHRAFCD 208 (556)
Q Consensus 160 ~C~~Cgk~F~~~s~L~~H~r~~gekpy~C~-Cgk~F~~~~~L~~H~~~h~ 208 (556)
.|--|.+.|........-. ......|+|. |...|-..-+...|...|.
T Consensus 57 ~C~~C~~~f~~~~~~~~~~-~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 57 FCFGCQGPFPKPPVSPFDE-LKDSHRYVCAVCKNVFCVDCDVFVHESLHC 105 (112)
T ss_pred cccCcCCCCCCcccccccc-cccccceeCCCCCCccccccchhhhhhccC
Confidence 3777777776543211100 1233467787 8887777777777776654
No 72
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=74.68 E-value=15 Score=37.84 Aligned_cols=28 Identities=11% Similarity=0.249 Sum_probs=23.1
Q ss_pred cCCcceecc----CCCccCChhHHHHHHhhhh
Q 008724 181 CGTREYKCD----CGKLFSRRDSFITHRAFCD 208 (556)
Q Consensus 181 ~gekpy~C~----Cgk~F~~~~~L~~H~~~h~ 208 (556)
..+-.|.|. |.++|.....|..|+...|
T Consensus 140 ~~g~iFmC~~~~GC~RTyLsqrDlqAHInhrH 171 (389)
T KOG2932|consen 140 MMGGIFMCAAPHGCLRTYLSQRDLQAHINHRH 171 (389)
T ss_pred cccceEEeecchhHHHHHhhHHHHHHHhhhhh
Confidence 345679994 9999999999999987554
No 73
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=72.03 E-value=2.1 Score=40.07 Aligned_cols=19 Identities=16% Similarity=0.506 Sum_probs=14.3
Q ss_pred ccccccCCccccccccccc
Q 008724 158 KWKCEKCSKKYAVQSDWKA 176 (556)
Q Consensus 158 py~C~~Cgk~F~~~s~L~~ 176 (556)
.|+|..||++|.....+..
T Consensus 28 ~~~c~~c~~~f~~~e~~~~ 46 (154)
T PRK00464 28 RRECLACGKRFTTFERVEL 46 (154)
T ss_pred eeeccccCCcceEeEeccC
Confidence 3889999999987665543
No 74
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=71.26 E-value=3.1 Score=46.44 Aligned_cols=29 Identities=17% Similarity=0.331 Sum_probs=24.7
Q ss_pred CCCCccccCCCCCccCChHHHHHHHHhcC
Q 008724 78 MATNRFLCEICNKGFQRDQNLQLHRRGHN 106 (556)
Q Consensus 78 ~~~k~y~C~~Cgk~F~~~~~L~~H~r~H~ 106 (556)
-...+-+|..||..|.+.....+|+-.|.
T Consensus 414 y~~~pnqC~~CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 414 YKDSPNQCKSCGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred ccCCcchhcccccccccchhhhhHhhhhh
Confidence 34567899999999999999998888884
No 75
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=70.80 E-value=5.5 Score=41.57 Aligned_cols=32 Identities=9% Similarity=0.181 Sum_probs=24.6
Q ss_pred CcccccccCCccccccccccccccc-cCCccee
Q 008724 156 EKKWKCEKCSKKYAVQSDWKAHSKI-CGTREYK 187 (556)
Q Consensus 156 ekpy~C~~Cgk~F~~~s~L~~H~r~-~gekpy~ 187 (556)
+.-|.|++|++.-.....|..|... |-+-++.
T Consensus 77 ~qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~ 109 (381)
T KOG1280|consen 77 PQSFTCPYCGIMGFTERQFGTHVLSQHPEASTS 109 (381)
T ss_pred cccccCCcccccccchhHHHHHhhhcCcccCcc
Confidence 4569999999988888888888776 7655443
No 76
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=70.74 E-value=2 Score=32.85 Aligned_cols=28 Identities=32% Similarity=0.705 Sum_probs=16.7
Q ss_pred cCCcceecc-CCCccCChhHHHHHHhhhh
Q 008724 181 CGTREYKCD-CGKLFSRRDSFITHRAFCD 208 (556)
Q Consensus 181 ~gekpy~C~-Cgk~F~~~~~L~~H~~~h~ 208 (556)
-||.-++|. |+..|.+..++.+|...-|
T Consensus 13 DGE~~lrCPRC~~~FR~~K~Y~RHVNKaH 41 (65)
T COG4049 13 DGEEFLRCPRCGMVFRRRKDYIRHVNKAH 41 (65)
T ss_pred CCceeeeCCchhHHHHHhHHHHHHhhHHh
Confidence 355556666 6666666666666655433
No 77
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=70.07 E-value=0.87 Score=44.01 Aligned_cols=79 Identities=23% Similarity=0.436 Sum_probs=60.6
Q ss_pred CCCccccCC--CCCccCChHHHHHHHHhcCCCchhhcccccccCCceeeCCCCCcccCCCCCcccCccchhhhhcccc--
Q 008724 79 ATNRFLCEI--CNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKH-- 154 (556)
Q Consensus 79 ~~k~y~C~~--Cgk~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~-- 154 (556)
....|.|.+ |-..|.....+..|..+-+ + -.|.+| .+.|....-|..|+..-|
T Consensus 76 ~~~~~~cqvagc~~~~d~lD~~E~hY~~~h-------------~---~sCs~C-------~r~~Pt~hLLd~HI~E~HDs 132 (253)
T KOG4173|consen 76 RVPAFACQVAGCCQVFDALDDYEHHYHTLH-------------G---NSCSFC-------KRAFPTGHLLDAHILEWHDS 132 (253)
T ss_pred ccccccccccchHHHHhhhhhHHHhhhhcc-------------c---chhHHH-------HHhCCchhhhhHHHHHHHHH
Confidence 345688987 7788888888888864433 1 378888 999999999999986433
Q ss_pred --------CCccccc--ccCCccccccccccccccc
Q 008724 155 --------GEKKWKC--EKCSKKYAVQSDWKAHSKI 180 (556)
Q Consensus 155 --------~ekpy~C--~~Cgk~F~~~s~L~~H~r~ 180 (556)
|.-.|.| +.|+..|++...-++|+..
T Consensus 133 ~Fqa~veRG~dMy~ClvEgCt~KFkT~r~RkdH~I~ 168 (253)
T KOG4173|consen 133 LFQALVERGQDMYQCLVEGCTEKFKTSRDRKDHMIR 168 (253)
T ss_pred HHHHHHHcCccHHHHHHHhhhhhhhhhhhhhhHHHH
Confidence 3446899 5599999999999999776
No 78
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=69.74 E-value=0.94 Score=34.59 Aligned_cols=30 Identities=23% Similarity=0.610 Sum_probs=19.9
Q ss_pred ccCCcccccccCCccccccccccccccc-cC
Q 008724 153 KHGEKKWKCEKCSKKYAVQSDWKAHSKI-CG 182 (556)
Q Consensus 153 H~~ekpy~C~~Cgk~F~~~s~L~~H~r~-~g 182 (556)
..||--++|+.|++.|.+..+..+|... |+
T Consensus 12 RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 12 RDGEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred cCCceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 3455666777777777777777777665 54
No 79
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=68.27 E-value=3 Score=43.32 Aligned_cols=23 Identities=13% Similarity=0.365 Sum_probs=19.8
Q ss_pred eecc-CCCccCChhHHHHHHhhhh
Q 008724 186 YKCD-CGKLFSRRDSFITHRAFCD 208 (556)
Q Consensus 186 y~C~-Cgk~F~~~~~L~~H~~~h~ 208 (556)
.+|- |....-+...|..|++..|
T Consensus 280 v~CLfC~~~~en~~~l~eHmk~vH 303 (423)
T KOG2482|consen 280 VVCLFCTNFYENPVFLFEHMKIVH 303 (423)
T ss_pred eEEEeeccchhhHHHHHHHHHHHH
Confidence 4798 9998888999999998766
No 80
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=63.47 E-value=3.7 Score=34.40 Aligned_cols=14 Identities=50% Similarity=1.149 Sum_probs=9.7
Q ss_pred ccccccCCcccccc
Q 008724 158 KWKCEKCSKKYAVQ 171 (556)
Q Consensus 158 py~C~~Cgk~F~~~ 171 (556)
-|.|..|+..|.--
T Consensus 53 IW~C~kCg~~fAGg 66 (89)
T COG1997 53 IWKCRKCGAKFAGG 66 (89)
T ss_pred eEEcCCCCCeeccc
Confidence 47777777777644
No 81
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=62.85 E-value=5.5 Score=27.11 Aligned_cols=10 Identities=30% Similarity=1.076 Sum_probs=7.4
Q ss_pred cccccccCCc
Q 008724 157 KKWKCEKCSK 166 (556)
Q Consensus 157 kpy~C~~Cgk 166 (556)
.++.|++|+.
T Consensus 16 ~~~~CP~Cg~ 25 (33)
T cd00350 16 APWVCPVCGA 25 (33)
T ss_pred CCCcCcCCCC
Confidence 6678888875
No 82
>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=62.52 E-value=4.8 Score=35.09 Aligned_cols=23 Identities=22% Similarity=0.572 Sum_probs=21.2
Q ss_pred eec----c-CCCccCChhHHHHHHhhhh
Q 008724 186 YKC----D-CGKLFSRRDSFITHRAFCD 208 (556)
Q Consensus 186 y~C----~-Cgk~F~~~~~L~~H~~~h~ 208 (556)
|.| . |+..+.+...+.+|.+.+|
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~H 108 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEH 108 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhc
Confidence 899 7 9999999999999998776
No 83
>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=62.22 E-value=5.7 Score=28.63 Aligned_cols=26 Identities=23% Similarity=0.439 Sum_probs=17.5
Q ss_pred CCCCccccCCCCCccCCh----HHHHHHHH
Q 008724 78 MATNRFLCEICNKGFQRD----QNLQLHRR 103 (556)
Q Consensus 78 ~~~k~y~C~~Cgk~F~~~----~~L~~H~r 103 (556)
......+|.+|++.+... .+|.+|++
T Consensus 12 ~~~~~a~C~~C~~~~~~~~~~ts~l~~HL~ 41 (45)
T PF02892_consen 12 GDKKKAKCKYCGKVIKYSSGGTSNLKRHLK 41 (45)
T ss_dssp GCSS-EEETTTTEE-----SSTHHHHHHHH
T ss_pred CCcCeEEeCCCCeEEeeCCCcHHHHHHhhh
Confidence 345678999999999875 78999984
No 84
>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=62.11 E-value=4.9 Score=35.33 Aligned_cols=24 Identities=29% Similarity=0.568 Sum_probs=18.4
Q ss_pred ccccCCCCCccCChHHHHHHHHhcCCCchhhcccccccCCceeeCCCC
Q 008724 82 RFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEP 129 (556)
Q Consensus 82 ~y~C~~Cgk~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~k~y~C~~C 129 (556)
+..|+.||+.|... ++.|.+|++|
T Consensus 9 KR~Cp~CG~kFYDL------------------------nk~PivCP~C 32 (108)
T PF09538_consen 9 KRTCPSCGAKFYDL------------------------NKDPIVCPKC 32 (108)
T ss_pred cccCCCCcchhccC------------------------CCCCccCCCC
Confidence 46799999999642 3477889999
No 85
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=60.31 E-value=4.9 Score=37.63 Aligned_cols=42 Identities=21% Similarity=0.382 Sum_probs=22.5
Q ss_pred cccccCCccccc-cccccccccccCCcceecc-CCCccCChhHH
Q 008724 159 WKCEKCSKKYAV-QSDWKAHSKICGTREYKCD-CGKLFSRRDSF 200 (556)
Q Consensus 159 y~C~~Cgk~F~~-~s~L~~H~r~~gekpy~C~-Cgk~F~~~~~L 200 (556)
++|++||-.++. .+....--...-.+.|.|. ||++|.....+
T Consensus 1 m~cp~c~~~~~~~~~s~~~~~~~~~~~~~~c~~c~~~f~~~e~~ 44 (154)
T PRK00464 1 MRCPFCGHPDTRVIDSRPAEDGNAIRRRRECLACGKRFTTFERV 44 (154)
T ss_pred CcCCCCCCCCCEeEeccccCCCCceeeeeeccccCCcceEeEec
Confidence 478888865521 1111000011112348999 99999876543
No 86
>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=57.62 E-value=1.8 Score=42.74 Aligned_cols=24 Identities=25% Similarity=0.517 Sum_probs=12.9
Q ss_pred cccccccCCccccccccccccccc
Q 008724 157 KKWKCEKCSKKYAVQSDWKAHSKI 180 (556)
Q Consensus 157 kpy~C~~Cgk~F~~~s~L~~H~r~ 180 (556)
..|.|..|+|.|+-...+++|+..
T Consensus 76 ~K~~C~lc~KlFkg~eFV~KHI~n 99 (214)
T PF04959_consen 76 DKWRCPLCGKLFKGPEFVRKHIFN 99 (214)
T ss_dssp EEEEE-SSS-EESSHHHHHHHHHH
T ss_pred CEECCCCCCcccCChHHHHHHHhh
Confidence 346666666666666665556555
No 87
>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=52.59 E-value=8.7 Score=34.62 Aligned_cols=15 Identities=0% Similarity=0.051 Sum_probs=7.5
Q ss_pred cccccccCCcccccc
Q 008724 157 KKWKCEKCSKKYAVQ 171 (556)
Q Consensus 157 kpy~C~~Cgk~F~~~ 171 (556)
.|..|++||..|...
T Consensus 25 ~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 25 RPAVSPYTGEQFPPE 39 (129)
T ss_pred CCccCCCcCCccCcc
Confidence 445555555554433
No 88
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=52.43 E-value=11 Score=35.82 Aligned_cols=26 Identities=35% Similarity=0.643 Sum_probs=20.2
Q ss_pred CceeeCCCCCcccCCCCCcccCccchhhhhccccCCcccccccCCc
Q 008724 121 KKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSK 166 (556)
Q Consensus 121 ~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~~ekpy~C~~Cgk 166 (556)
.+.|+|++| |. +|.++-|.+|++||-
T Consensus 132 ~~~~vC~vC-------Gy-------------~~~ge~P~~CPiCga 157 (166)
T COG1592 132 GKVWVCPVC-------GY-------------THEGEAPEVCPICGA 157 (166)
T ss_pred CCEEEcCCC-------CC-------------cccCCCCCcCCCCCC
Confidence 348999999 54 345688999999983
No 89
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=52.41 E-value=15 Score=38.34 Aligned_cols=12 Identities=8% Similarity=0.102 Sum_probs=9.8
Q ss_pred CCceeeCCCCCc
Q 008724 120 RKKVYVCPEPTC 131 (556)
Q Consensus 120 ~~k~y~C~~C~C 131 (556)
|.+-..|..|++
T Consensus 207 G~RyL~CslC~t 218 (305)
T TIGR01562 207 GLRYLSCSLCAT 218 (305)
T ss_pred CceEEEcCCCCC
Confidence 678889999955
No 90
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=52.21 E-value=7.9 Score=38.20 Aligned_cols=44 Identities=16% Similarity=0.335 Sum_probs=30.0
Q ss_pred CceeeCCCCCcccCCCCCcccCccchhhhhcc---cc-------CCcc-----cccccCCcccccc
Q 008724 121 KKVYVCPEPTCVHHDPSRALGDLTGIKKHFSR---KH-------GEKK-----WKCEKCSKKYAVQ 171 (556)
Q Consensus 121 ~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~---H~-------~ekp-----y~C~~Cgk~F~~~ 171 (556)
+|.+.|++| ++.|..+.-.....+. .. +..| +.|+.||.+|...
T Consensus 3 ~k~~~CPvC-------~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 3 DKKITCPVC-------GKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CCceECCCC-------CCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 466899999 8888877655555443 11 1223 5799999988755
No 91
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=51.95 E-value=9.9 Score=28.31 Aligned_cols=25 Identities=40% Similarity=0.735 Sum_probs=20.4
Q ss_pred CccccCCCCCccCCh-----HHHHHHHH-hc
Q 008724 81 NRFLCEICNKGFQRD-----QNLQLHRR-GH 105 (556)
Q Consensus 81 k~y~C~~Cgk~F~~~-----~~L~~H~r-~H 105 (556)
..-.|.+|++.+... ++|.+|++ .|
T Consensus 17 ~~a~C~~C~~~l~~~~~~gTs~L~rHl~~~h 47 (50)
T smart00614 17 QRAKCKYCGKKLSRSSKGGTSNLRRHLRRKH 47 (50)
T ss_pred eEEEecCCCCEeeeCCCCCcHHHHHHHHhHC
Confidence 457899999999776 68999987 45
No 92
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=50.20 E-value=7.9 Score=31.51 Aligned_cols=7 Identities=29% Similarity=0.724 Sum_probs=3.5
Q ss_pred CCCccCC
Q 008724 190 CGKLFSR 196 (556)
Q Consensus 190 Cgk~F~~ 196 (556)
||.+|..
T Consensus 35 Cg~tF~t 41 (72)
T PRK09678 35 CSATFIT 41 (72)
T ss_pred CCCEEEE
Confidence 5555544
No 93
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=49.11 E-value=14 Score=42.25 Aligned_cols=27 Identities=30% Similarity=0.512 Sum_probs=24.6
Q ss_pred CCccccCCCCCccCChHHHHHHHHhcC
Q 008724 80 TNRFLCEICNKGFQRDQNLQLHRRGHN 106 (556)
Q Consensus 80 ~k~y~C~~Cgk~F~~~~~L~~H~r~H~ 106 (556)
..-|.|.+|+|+|.....+..||++|.
T Consensus 790 ~giFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 790 TGIFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred CceeehHHHHHHHHHHhhhhHHHHHHH
Confidence 345999999999999999999999997
No 94
>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=47.86 E-value=11 Score=33.22 Aligned_cols=15 Identities=20% Similarity=0.647 Sum_probs=9.4
Q ss_pred cccccccCCcccccc
Q 008724 157 KKWKCEKCSKKYAVQ 171 (556)
Q Consensus 157 kpy~C~~Cgk~F~~~ 171 (556)
.|..|++||..|.-.
T Consensus 25 ~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 25 DPIVCPKCGTEFPPE 39 (108)
T ss_pred CCccCCCCCCccCcc
Confidence 556666666666554
No 95
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=47.81 E-value=6.6 Score=39.34 Aligned_cols=48 Identities=23% Similarity=0.525 Sum_probs=37.9
Q ss_pred eeeCCCCCcccCCCCCcccCccchhhhhccccCCcccccccCCccccccccccccccc
Q 008724 123 VYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAHSKI 180 (556)
Q Consensus 123 ~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~~ekpy~C~~Cgk~F~~~s~L~~H~r~ 180 (556)
-|.|..| +.... +-.+.+|+-+.++ ..|.|-.|++.|.+ ...+.|.+-
T Consensus 3 ~FtCnvC-------gEsvK-Kp~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~kC 50 (276)
T KOG2186|consen 3 FFTCNVC-------GESVK-KPQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTKC 50 (276)
T ss_pred EEehhhh-------hhhcc-ccchHHHHHhccC-CeeEEeeccccccc-chhhhhhhh
Confidence 4789999 55443 4567889998888 67999999999998 677888764
No 96
>KOG4217 consensus Nuclear receptors of the nerve growth factor-induced protein B type [Transcription]
Probab=47.78 E-value=24 Score=38.47 Aligned_cols=12 Identities=42% Similarity=0.910 Sum_probs=7.7
Q ss_pred CCCCCCCCCCCC
Q 008724 313 PNSTSFAPFEPP 324 (556)
Q Consensus 313 P~~~sl~~~~pp 324 (556)
|+.++.|.|++|
T Consensus 144 ~~sPttpafqpp 155 (605)
T KOG4217|consen 144 PPSPTTPAFQPP 155 (605)
T ss_pred CCCCCCCCCCCC
Confidence 444667777765
No 97
>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=44.79 E-value=10 Score=37.49 Aligned_cols=29 Identities=17% Similarity=0.433 Sum_probs=22.5
Q ss_pred CCCCccccCCCCCccCChHHHHHHHHhcC
Q 008724 78 MATNRFLCEICNKGFQRDQNLQLHRRGHN 106 (556)
Q Consensus 78 ~~~k~y~C~~Cgk~F~~~~~L~~H~r~H~ 106 (556)
..+.+|.|..|+|.|.-..-.++|+..-|
T Consensus 73 ~~~~K~~C~lc~KlFkg~eFV~KHI~nKH 101 (214)
T PF04959_consen 73 EDEDKWRCPLCGKLFKGPEFVRKHIFNKH 101 (214)
T ss_dssp SSSEEEEE-SSS-EESSHHHHHHHHHHH-
T ss_pred HcCCEECCCCCCcccCChHHHHHHHhhcC
Confidence 45678999999999999999999976654
No 98
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=44.19 E-value=6.9 Score=40.91 Aligned_cols=67 Identities=24% Similarity=0.497 Sum_probs=44.9
Q ss_pred CCCCccccCC--CCCccCChHHHHHHHHh-cCCCchhh-----cccccccCCceeeCCCCCcccCCCCCcccCccchhhh
Q 008724 78 MATNRFLCEI--CNKGFQRDQNLQLHRRG-HNLPWKLK-----QRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKH 149 (556)
Q Consensus 78 ~~~k~y~C~~--Cgk~F~~~~~L~~H~r~-H~~p~~~~-----~~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H 149 (556)
.-.++|+|.+ |.+.+.....|+.|... |..+.... .+.--....|+|+|++| .++++....|+.|
T Consensus 345 ~~~~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~-------~~~~k~~~~l~~~ 417 (442)
T KOG4124|consen 345 VVDKPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVC-------SKRYKNLNGLKYH 417 (442)
T ss_pred EecCCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhh-------hhhhccCCCCCce
Confidence 3458899965 99999999999988543 43222111 12222336799999999 7888777777766
Q ss_pred hc
Q 008724 150 FS 151 (556)
Q Consensus 150 ~r 151 (556)
..
T Consensus 418 ~~ 419 (442)
T KOG4124|consen 418 RT 419 (442)
T ss_pred ee
Confidence 44
No 99
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=44.10 E-value=15 Score=25.58 Aligned_cols=10 Identities=30% Similarity=1.029 Sum_probs=4.8
Q ss_pred cccccCCccc
Q 008724 159 WKCEKCSKKY 168 (556)
Q Consensus 159 y~C~~Cgk~F 168 (556)
.+|..|+..|
T Consensus 26 v~C~~C~~~f 35 (36)
T PF13717_consen 26 VRCSKCGHVF 35 (36)
T ss_pred EECCCCCCEe
Confidence 4455555444
No 100
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=43.42 E-value=21 Score=37.33 Aligned_cols=36 Identities=11% Similarity=0.193 Sum_probs=21.2
Q ss_pred CCccccCCCCCccCChHHHHHHHHhcCCCchhhcccccccCCceeeCCCCCc
Q 008724 80 TNRFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTC 131 (556)
Q Consensus 80 ~k~y~C~~Cgk~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~k~y~C~~C~C 131 (556)
+.+-.|++||..-. .+-+ +..... |.+-..|..|++
T Consensus 185 ~~~~~CPvCGs~P~-~s~v--~~~~~~-------------G~RyL~CslC~t 220 (309)
T PRK03564 185 EQRQFCPVCGSMPV-SSVV--QIGTTQ-------------GLRYLHCNLCES 220 (309)
T ss_pred cCCCCCCCCCCcch-hhee--eccCCC-------------CceEEEcCCCCC
Confidence 35567999997432 1111 112222 778889999965
No 101
>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=43.38 E-value=15 Score=36.98 Aligned_cols=21 Identities=24% Similarity=0.393 Sum_probs=11.0
Q ss_pred cccccccCCcccccccccccc
Q 008724 157 KKWKCEKCSKKYAVQSDWKAH 177 (556)
Q Consensus 157 kpy~C~~Cgk~F~~~s~L~~H 177 (556)
+++.|+.|+.....-..|..-
T Consensus 208 k~~PCPKCg~et~eTkdLSmS 228 (314)
T PF06524_consen 208 KPIPCPKCGYETQETKDLSMS 228 (314)
T ss_pred CCCCCCCCCCcccccccceee
Confidence 455566666555544444433
No 102
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=42.12 E-value=15 Score=34.87 Aligned_cols=24 Identities=21% Similarity=0.549 Sum_probs=18.9
Q ss_pred CccccCCCCCccCChHHHHHHHHhcCCCchhhcccccccCCceeeCCCCC
Q 008724 81 NRFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPT 130 (556)
Q Consensus 81 k~y~C~~Cgk~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~k~y~C~~C~ 130 (556)
+.|+|++||..+. ++.|-+||+||
T Consensus 133 ~~~vC~vCGy~~~--------------------------ge~P~~CPiCg 156 (166)
T COG1592 133 KVWVCPVCGYTHE--------------------------GEAPEVCPICG 156 (166)
T ss_pred CEEEcCCCCCccc--------------------------CCCCCcCCCCC
Confidence 3799999986532 67899999994
No 103
>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=41.98 E-value=19 Score=32.83 Aligned_cols=27 Identities=30% Similarity=0.636 Sum_probs=17.6
Q ss_pred cCCCCccccCCCCCccCChHHHHHHHHhcC
Q 008724 77 LMATNRFLCEICNKGFQRDQNLQLHRRGHN 106 (556)
Q Consensus 77 ~~~~k~y~C~~Cgk~F~~~~~L~~H~r~H~ 106 (556)
...+....|-+|||.|.. |++|.+.|+
T Consensus 67 SI~~d~i~clecGk~~k~---LkrHL~~~~ 93 (132)
T PF05443_consen 67 SITPDYIICLECGKKFKT---LKRHLRTHH 93 (132)
T ss_dssp TB-SS-EE-TBT--EESB---HHHHHHHTT
T ss_pred ccccCeeEEccCCcccch---HHHHHHHcc
Confidence 345567889999999974 699999995
No 104
>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=41.72 E-value=15 Score=25.47 Aligned_cols=15 Identities=20% Similarity=0.574 Sum_probs=12.2
Q ss_pred cccCCCCCccCChHH
Q 008724 83 FLCEICNKGFQRDQN 97 (556)
Q Consensus 83 y~C~~Cgk~F~~~~~ 97 (556)
+.|+.|+..|.-...
T Consensus 3 ~~CP~C~~~~~v~~~ 17 (38)
T TIGR02098 3 IQCPNCKTSFRVVDS 17 (38)
T ss_pred EECCCCCCEEEeCHH
Confidence 689999999876654
No 105
>PRK04023 DNA polymerase II large subunit; Validated
Probab=41.32 E-value=24 Score=42.17 Aligned_cols=14 Identities=29% Similarity=0.579 Sum_probs=9.4
Q ss_pred CCCCccccCCCCCc
Q 008724 78 MATNRFLCEICNKG 91 (556)
Q Consensus 78 ~~~k~y~C~~Cgk~ 91 (556)
.......|+.||+.
T Consensus 622 VEVg~RfCpsCG~~ 635 (1121)
T PRK04023 622 VEIGRRKCPSCGKE 635 (1121)
T ss_pred ecccCccCCCCCCc
Confidence 33455678888876
No 106
>KOG4369 consensus RTK signaling protein MASK/UNC-44 [Signal transduction mechanisms]
Probab=41.30 E-value=6.3 Score=47.14 Aligned_cols=11 Identities=27% Similarity=0.126 Sum_probs=5.1
Q ss_pred CCCCchhhHHH
Q 008724 328 GSQHTSATALL 338 (556)
Q Consensus 328 ~s~hmSAt~l~ 338 (556)
..+|..|--|+
T Consensus 1933 ~y~~~~~~~l~ 1943 (2131)
T KOG4369|consen 1933 LYNHLAAQLLT 1943 (2131)
T ss_pred cchhHHHHHHH
Confidence 34555444443
No 107
>PHA00626 hypothetical protein
Probab=41.22 E-value=19 Score=27.71 Aligned_cols=14 Identities=14% Similarity=0.468 Sum_probs=8.4
Q ss_pred cccccccCCccccc
Q 008724 157 KKWKCEKCSKKYAV 170 (556)
Q Consensus 157 kpy~C~~Cgk~F~~ 170 (556)
..|+|..|+..|+.
T Consensus 22 nrYkCkdCGY~ft~ 35 (59)
T PHA00626 22 DDYVCCDCGYNDSK 35 (59)
T ss_pred cceEcCCCCCeech
Confidence 34666666666653
No 108
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=41.02 E-value=15 Score=31.20 Aligned_cols=13 Identities=38% Similarity=1.007 Sum_probs=7.8
Q ss_pred ccccccCCccccc
Q 008724 158 KWKCEKCSKKYAV 170 (556)
Q Consensus 158 py~C~~Cgk~F~~ 170 (556)
.|.|..|++.|.-
T Consensus 54 IW~C~~C~~~~AG 66 (90)
T PTZ00255 54 IWRCKGCKKTVAG 66 (90)
T ss_pred EEEcCCCCCEEeC
Confidence 4666666666553
No 109
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=40.40 E-value=26 Score=27.37 Aligned_cols=14 Identities=21% Similarity=0.373 Sum_probs=9.9
Q ss_pred CccccCCCCCccCC
Q 008724 81 NRFLCEICNKGFQR 94 (556)
Q Consensus 81 k~y~C~~Cgk~F~~ 94 (556)
-.|.|+.||+.-..
T Consensus 26 v~F~CPnCGe~~I~ 39 (61)
T COG2888 26 VKFPCPNCGEVEIY 39 (61)
T ss_pred eEeeCCCCCceeee
Confidence 45889999975443
No 110
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=39.84 E-value=14 Score=39.96 Aligned_cols=36 Identities=28% Similarity=0.631 Sum_probs=24.5
Q ss_pred CCcccccccCCccccccccccccccccCCcceecc-CCC
Q 008724 155 GEKKWKCEKCSKKYAVQSDWKAHSKICGTREYKCD-CGK 192 (556)
Q Consensus 155 ~ekpy~C~~Cgk~F~~~s~L~~H~r~~gekpy~C~-Cgk 192 (556)
...-|.|+.|.+.|.....++- ..-..-.|.|. |+-
T Consensus 125 ~~~~Y~Cp~C~kkyt~Lea~~L--~~~~~~~F~C~~C~g 161 (436)
T KOG2593|consen 125 NVAGYVCPNCQKKYTSLEALQL--LDNETGEFHCENCGG 161 (436)
T ss_pred ccccccCCccccchhhhHHHHh--hcccCceEEEecCCC
Confidence 3456999999999988776542 11334578888 864
No 111
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=39.18 E-value=42 Score=29.71 Aligned_cols=88 Identities=14% Similarity=0.197 Sum_probs=51.3
Q ss_pred CCccccCCCCCccCChHHHHHHHHhcC----CCchhhcccccccCCceeeCCCCCcccCCCCCcccCccchhhhhccccC
Q 008724 80 TNRFLCEICNKGFQRDQNLQLHRRGHN----LPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHG 155 (556)
Q Consensus 80 ~k~y~C~~Cgk~F~~~~~L~~H~r~H~----~p~~~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~~ 155 (556)
+-|.+|++||-......+|.+- .|+ .+|.-.... .......|--| .+.|........- .-..
T Consensus 13 ~LP~~CpiCgLtLVss~HLARS--yHHLfPl~~f~ev~~~---~~~~~~~C~~C-------~~~f~~~~~~~~~--~~~~ 78 (112)
T TIGR00622 13 ELPVECPICGLTLILSTHLARS--YHHLFPLKAFQEIPLE---EYNGSRFCFGC-------QGPFPKPPVSPFD--ELKD 78 (112)
T ss_pred CCCCcCCcCCCEEeccchHHHh--hhccCCCccccccccc---ccCCCCcccCc-------CCCCCCccccccc--cccc
Confidence 3467899999999888888765 343 122110000 01111235555 7777654321110 0122
Q ss_pred CcccccccCCcccccccccccccccc
Q 008724 156 EKKWKCEKCSKKYAVQSDWKAHSKIC 181 (556)
Q Consensus 156 ekpy~C~~Cgk~F~~~s~L~~H~r~~ 181 (556)
...|+|+.|...|-..-+.-.|...|
T Consensus 79 ~~~y~C~~C~~~FC~dCD~fiHe~Lh 104 (112)
T TIGR00622 79 SHRYVCAVCKNVFCVDCDVFVHESLH 104 (112)
T ss_pred ccceeCCCCCCccccccchhhhhhcc
Confidence 34699999999999888888887653
No 112
>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=38.81 E-value=16 Score=31.05 Aligned_cols=13 Identities=46% Similarity=1.183 Sum_probs=7.5
Q ss_pred ccccccCCccccc
Q 008724 158 KWKCEKCSKKYAV 170 (556)
Q Consensus 158 py~C~~Cgk~F~~ 170 (556)
.|.|..|++.|.-
T Consensus 53 IW~C~~C~~~~AG 65 (91)
T TIGR00280 53 IWTCRKCGAKFAG 65 (91)
T ss_pred EEEcCCCCCEEeC
Confidence 3666666666553
No 113
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=38.45 E-value=23 Score=41.38 Aligned_cols=9 Identities=22% Similarity=0.696 Sum_probs=4.4
Q ss_pred cccccccCC
Q 008724 157 KKWKCEKCS 165 (556)
Q Consensus 157 kpy~C~~Cg 165 (556)
.|..|+.||
T Consensus 474 ~p~~Cp~Cg 482 (730)
T COG1198 474 IPQSCPECG 482 (730)
T ss_pred CCCCCCCCC
Confidence 444555554
No 114
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=38.44 E-value=20 Score=33.11 Aligned_cols=22 Identities=14% Similarity=0.288 Sum_probs=16.2
Q ss_pred CCCCccccCCCCCccCChHHHH
Q 008724 78 MATNRFLCEICNKGFQRDQNLQ 99 (556)
Q Consensus 78 ~~~k~y~C~~Cgk~F~~~~~L~ 99 (556)
....-|.|+.|++.|.....+.
T Consensus 95 ~~~~~Y~Cp~C~~~y~~~ea~~ 116 (147)
T smart00531 95 TNNAYYKCPNCQSKYTFLEANQ 116 (147)
T ss_pred cCCcEEECcCCCCEeeHHHHHH
Confidence 3456799999999998655443
No 115
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=38.24 E-value=19 Score=33.24 Aligned_cols=39 Identities=15% Similarity=0.447 Sum_probs=23.3
Q ss_pred CCceeeCCCCCcccCCCCCcccCccchhhhhccccCCcccccccCCcccc
Q 008724 120 RKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYA 169 (556)
Q Consensus 120 ~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~~ekpy~C~~Cgk~F~ 169 (556)
...-|.|+.| +..|.....+.. . .. ...|.|+.||....
T Consensus 96 ~~~~Y~Cp~C-------~~~y~~~ea~~~-~--d~-~~~f~Cp~Cg~~l~ 134 (147)
T smart00531 96 NNAYYKCPNC-------QSKYTFLEANQL-L--DM-DGTFTCPRCGEELE 134 (147)
T ss_pred CCcEEECcCC-------CCEeeHHHHHHh-c--CC-CCcEECCCCCCEEE
Confidence 5567888888 666665433322 0 11 33488888887654
No 116
>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=38.06 E-value=25 Score=24.13 Aligned_cols=10 Identities=30% Similarity=0.611 Sum_probs=6.9
Q ss_pred cccccccCCc
Q 008724 157 KKWKCEKCSK 166 (556)
Q Consensus 157 kpy~C~~Cgk 166 (556)
.|..|++|+.
T Consensus 17 ~p~~CP~Cg~ 26 (34)
T cd00729 17 APEKCPICGA 26 (34)
T ss_pred CCCcCcCCCC
Confidence 4567877775
No 117
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=36.47 E-value=18 Score=29.44 Aligned_cols=22 Identities=18% Similarity=0.502 Sum_probs=17.5
Q ss_pred cCCcccccc--cCCcccccccccc
Q 008724 154 HGEKKWKCE--KCSKKYAVQSDWK 175 (556)
Q Consensus 154 ~~ekpy~C~--~Cgk~F~~~s~L~ 175 (556)
..++.|.|. .||.+|.....+.
T Consensus 23 ~~~~Y~qC~N~eCg~tF~t~es~s 46 (72)
T PRK09678 23 TKERYHQCQNVNCSATFITYESVQ 46 (72)
T ss_pred hheeeeecCCCCCCCEEEEEEEEE
Confidence 456789998 8999999876655
No 118
>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=35.79 E-value=17 Score=30.83 Aligned_cols=12 Identities=67% Similarity=1.547 Sum_probs=7.0
Q ss_pred cccccCCccccc
Q 008724 159 WKCEKCSKKYAV 170 (556)
Q Consensus 159 y~C~~Cgk~F~~ 170 (556)
|.|..|++.|.-
T Consensus 54 W~C~~C~~~~AG 65 (90)
T PF01780_consen 54 WKCKKCGKKFAG 65 (90)
T ss_dssp EEETTTTEEEE-
T ss_pred eecCCCCCEEeC
Confidence 666666666653
No 119
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=35.78 E-value=47 Score=33.39 Aligned_cols=77 Identities=18% Similarity=0.382 Sum_probs=42.2
Q ss_pred ChHHHHHHHHhcCCCchhhcccccccCCceeeCCCCCcccCCCCCcccCccchhhhhccccCCcccccccCCcccccccc
Q 008724 94 RDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSD 173 (556)
Q Consensus 94 ~~~~L~~H~r~H~~p~~~~~~~~~~~~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~~ekpy~C~~Cgk~F~~~s~ 173 (556)
+..+|+.+-+.+.. ......+-|.|..| .... . .+.-....--+|..|.+.|.---.
T Consensus 91 Te~Nlrm~d~a~~~--------~ip~~drqFaC~~C-------d~~W------w--Rrvp~rKeVSRCr~C~~rYDPVP~ 147 (278)
T PF15135_consen 91 TEENLRMFDDAQEN--------LIPSVDRQFACSSC-------DHMW------W--RRVPQRKEVSRCRKCRKRYDPVPC 147 (278)
T ss_pred hHHHHHHhhhhhhc--------cccccceeeecccc-------chHH------H--hccCcccccccccccccccCCCcc
Confidence 34567666555530 00113477999988 3211 1 122222334578888887653221
Q ss_pred ccccccccCCcceecc-CCCccCCh
Q 008724 174 WKAHSKICGTREYKCD-CGKLFSRR 197 (556)
Q Consensus 174 L~~H~r~~gekpy~C~-Cgk~F~~~ 197 (556)
-+..|--.|.|. |+..|.-.
T Consensus 148 ----dkmwG~aef~C~~C~h~F~G~ 168 (278)
T PF15135_consen 148 ----DKMWGIAEFHCPKCRHNFRGF 168 (278)
T ss_pred ----ccccceeeeecccccccchhh
Confidence 112466679998 99988743
No 120
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=35.41 E-value=23 Score=30.01 Aligned_cols=32 Identities=25% Similarity=0.402 Sum_probs=22.2
Q ss_pred CCccccCCCCCccCChHHHHHHHHhcCCCchhhcccccccCCceeeCCCCCcccC
Q 008724 80 TNRFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPTCVHH 134 (556)
Q Consensus 80 ~k~y~C~~Cgk~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~k~y~C~~C~C~~~ 134 (556)
.+|-.|..||..|.... -++|-+|+.|...|.
T Consensus 56 v~Pa~CkkCGfef~~~~-----------------------ik~pSRCP~CKSE~I 87 (97)
T COG3357 56 VRPARCKKCGFEFRDDK-----------------------IKKPSRCPKCKSEWI 87 (97)
T ss_pred ecChhhcccCccccccc-----------------------cCCcccCCcchhhcc
Confidence 35678999999986521 346889999954433
No 121
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=35.31 E-value=43 Score=30.52 Aligned_cols=24 Identities=25% Similarity=0.409 Sum_probs=20.2
Q ss_pred CCccccCCCCCccCChHHHHHHHHhcC
Q 008724 80 TNRFLCEICNKGFQRDQNLQLHRRGHN 106 (556)
Q Consensus 80 ~k~y~C~~Cgk~F~~~~~L~~H~r~H~ 106 (556)
..-..|-+|||.|. .|++|.++|.
T Consensus 74 pD~IicLEDGkkfK---SLKRHL~t~~ 97 (148)
T COG4957 74 PDYIICLEDGKKFK---SLKRHLTTHY 97 (148)
T ss_pred CCeEEEeccCcchH---HHHHHHhccc
Confidence 34467999999995 7999999986
No 122
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=35.22 E-value=24 Score=31.82 Aligned_cols=34 Identities=18% Similarity=0.287 Sum_probs=25.3
Q ss_pred ccccccCCccccccccccccccccCCcceecc-CCCccCChhHHH
Q 008724 158 KWKCEKCSKKYAVQSDWKAHSKICGTREYKCD-CGKLFSRRDSFI 201 (556)
Q Consensus 158 py~C~~Cgk~F~~~s~L~~H~r~~gekpy~C~-Cgk~F~~~~~L~ 201 (556)
+..|+.||++|... +..|..|. ||..|.....++
T Consensus 9 Kr~Cp~cg~kFYDL----------nk~p~vcP~cg~~~~~~~~~~ 43 (129)
T TIGR02300 9 KRICPNTGSKFYDL----------NRRPAVSPYTGEQFPPEEALK 43 (129)
T ss_pred cccCCCcCcccccc----------CCCCccCCCcCCccCcchhhc
Confidence 46899999998753 23688999 999987664433
No 123
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=35.00 E-value=27 Score=36.13 Aligned_cols=48 Identities=15% Similarity=0.357 Sum_probs=31.7
Q ss_pred ccccCCccccccccccccccccCCcceecc-CCCccCChhHHHHHHhhhh
Q 008724 160 KCEKCSKKYAVQSDWKAHSKICGTREYKCD-CGKLFSRRDSFITHRAFCD 208 (556)
Q Consensus 160 ~C~~Cgk~F~~~s~L~~H~r~~gekpy~C~-Cgk~F~~~~~L~~H~~~h~ 208 (556)
.|-.|.-.|.....-.--. .+....|.|+ |...|-.......|...|.
T Consensus 364 ~Cf~CQ~~fp~~~~~~~~~-~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh~ 412 (421)
T COG5151 364 HCFVCQGPFPKPPVSPFDE-STSSGRYQCELCKSTFCSDCDVFIHETLHF 412 (421)
T ss_pred cceeccCCCCCCCCCcccc-cccccceechhhhhhhhhhhHHHHHHHHhh
Confidence 3777777776543321111 1344679999 9999988888888887765
No 124
>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=34.86 E-value=22 Score=26.39 Aligned_cols=10 Identities=20% Similarity=0.561 Sum_probs=6.3
Q ss_pred cccccccCCc
Q 008724 157 KKWKCEKCSK 166 (556)
Q Consensus 157 kpy~C~~Cgk 166 (556)
..-.|+.|+.
T Consensus 25 ~~~~CP~Cg~ 34 (52)
T TIGR02605 25 PLATCPECGG 34 (52)
T ss_pred CCCCCCCCCC
Confidence 4456777775
No 125
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=34.45 E-value=21 Score=26.79 Aligned_cols=11 Identities=18% Similarity=0.791 Sum_probs=7.2
Q ss_pred cccccccCCcc
Q 008724 157 KKWKCEKCSKK 167 (556)
Q Consensus 157 kpy~C~~Cgk~ 167 (556)
...+|+.||..
T Consensus 23 ~~irCp~Cg~r 33 (49)
T COG1996 23 RGIRCPYCGSR 33 (49)
T ss_pred CceeCCCCCcE
Confidence 45677777754
No 126
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=33.80 E-value=21 Score=30.36 Aligned_cols=13 Identities=46% Similarity=1.211 Sum_probs=7.5
Q ss_pred ccccccCCccccc
Q 008724 158 KWKCEKCSKKYAV 170 (556)
Q Consensus 158 py~C~~Cgk~F~~ 170 (556)
.|.|..|++.|.-
T Consensus 54 IW~C~~C~~~~AG 66 (90)
T PRK03976 54 IWECRKCGAKFAG 66 (90)
T ss_pred EEEcCCCCCEEeC
Confidence 3666666665553
No 127
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=33.47 E-value=45 Score=35.11 Aligned_cols=28 Identities=14% Similarity=0.268 Sum_probs=21.5
Q ss_pred CCCCccccCCCCCccCChHHHHHHHHhc
Q 008724 78 MATNRFLCEICNKGFQRDQNLQLHRRGH 105 (556)
Q Consensus 78 ~~~k~y~C~~Cgk~F~~~~~L~~H~r~H 105 (556)
.....|.|++|++.=.+...|..|+..-
T Consensus 75 y~~qSftCPyC~~~Gfte~~f~~Hv~s~ 102 (381)
T KOG1280|consen 75 YDPQSFTCPYCGIMGFTERQFGTHVLSQ 102 (381)
T ss_pred cccccccCCcccccccchhHHHHHhhhc
Confidence 3345799999999888888899996443
No 128
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=33.36 E-value=22 Score=33.09 Aligned_cols=32 Identities=28% Similarity=0.889 Sum_probs=20.1
Q ss_pred cccccccCCccccccccccccccc-cCCcceecc-CCCc
Q 008724 157 KKWKCEKCSKKYAVQSDWKAHSKI-CGTREYKCD-CGKL 193 (556)
Q Consensus 157 kpy~C~~Cgk~F~~~s~L~~H~r~-~gekpy~C~-Cgk~ 193 (556)
-+|.|. |+..|-+. ++|-.+ -|+ .|.|. |+-.
T Consensus 116 ~~Y~C~-C~q~~l~~---RRhn~~~~g~-~YrC~~C~gk 149 (156)
T COG3091 116 YPYRCQ-CQQHYLRI---RRHNTVRRGE-VYRCGKCGGK 149 (156)
T ss_pred eeEEee-cCCccchh---hhcccccccc-eEEeccCCce
Confidence 467888 87775543 344444 455 78887 8643
No 129
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=33.28 E-value=28 Score=25.33 Aligned_cols=12 Identities=17% Similarity=0.515 Sum_probs=8.0
Q ss_pred ccccccCCcccc
Q 008724 158 KWKCEKCSKKYA 169 (556)
Q Consensus 158 py~C~~Cgk~F~ 169 (556)
.++|+.||..+.
T Consensus 21 ~~~Cp~CG~~~~ 32 (46)
T PRK00398 21 GVRCPYCGYRIL 32 (46)
T ss_pred ceECCCCCCeEE
Confidence 467888876544
No 130
>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=33.22 E-value=27 Score=24.34 Aligned_cols=10 Identities=20% Similarity=0.561 Sum_probs=6.2
Q ss_pred cccccccCCc
Q 008724 157 KKWKCEKCSK 166 (556)
Q Consensus 157 kpy~C~~Cgk 166 (556)
..-.|+.||.
T Consensus 25 ~~~~CP~Cg~ 34 (41)
T smart00834 25 PLATCPECGG 34 (41)
T ss_pred CCCCCCCCCC
Confidence 3456777765
No 131
>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=32.68 E-value=37 Score=21.86 Aligned_cols=20 Identities=15% Similarity=0.458 Sum_probs=16.1
Q ss_pred cccCCCCCccCChHHHHHHHH
Q 008724 83 FLCEICNKGFQRDQNLQLHRR 103 (556)
Q Consensus 83 y~C~~Cgk~F~~~~~L~~H~r 103 (556)
..|++|++.+ ....+..|..
T Consensus 2 v~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 2 VQCPVCFREV-PENLINSHLD 21 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHHH
Confidence 4699999998 6677888865
No 132
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=32.44 E-value=37 Score=41.64 Aligned_cols=9 Identities=33% Similarity=0.759 Sum_probs=6.1
Q ss_pred ccccCCCCC
Q 008724 82 RFLCEICNK 90 (556)
Q Consensus 82 ~y~C~~Cgk 90 (556)
.++|+.||.
T Consensus 667 ~rkCPkCG~ 675 (1337)
T PRK14714 667 RRRCPSCGT 675 (1337)
T ss_pred EEECCCCCC
Confidence 367777776
No 133
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=32.06 E-value=23 Score=33.93 Aligned_cols=33 Identities=12% Similarity=0.430 Sum_probs=18.7
Q ss_pred CCceeeCCCCCcccCCCCCcccCccchhhhhccccCCcccccccCCccc
Q 008724 120 RKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKY 168 (556)
Q Consensus 120 ~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~~ekpy~C~~Cgk~F 168 (556)
...-|.|+.| ++.|.....+. .-|.|+.||...
T Consensus 114 ~~~~Y~Cp~C-------~~rytf~eA~~---------~~F~Cp~Cg~~L 146 (178)
T PRK06266 114 NNMFFFCPNC-------HIRFTFDEAME---------YGFRCPQCGEML 146 (178)
T ss_pred CCCEEECCCC-------CcEEeHHHHhh---------cCCcCCCCCCCC
Confidence 4456777776 55555444332 247777777543
No 134
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=31.84 E-value=27 Score=30.27 Aligned_cols=15 Identities=20% Similarity=0.536 Sum_probs=12.5
Q ss_pred ccccCCCCCccCChH
Q 008724 82 RFLCEICNKGFQRDQ 96 (556)
Q Consensus 82 ~y~C~~Cgk~F~~~~ 96 (556)
+++|..||+.|..-+
T Consensus 2 pH~CtrCG~vf~~g~ 16 (112)
T COG3364 2 PHQCTRCGEVFDDGS 16 (112)
T ss_pred Cceeccccccccccc
Confidence 578999999998753
No 135
>KOG4377 consensus Zn-finger protein [General function prediction only]
Probab=31.66 E-value=1.7e+02 Score=31.69 Aligned_cols=68 Identities=21% Similarity=0.507 Sum_probs=40.8
Q ss_pred CCceeeCCCCCcccCCCCCcccCccchhhhhccccCC------------ccccc--ccCCccccccccccccccccCCc-
Q 008724 120 RKKVYVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGE------------KKWKC--EKCSKKYAVQSDWKAHSKICGTR- 184 (556)
Q Consensus 120 ~~k~y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~~e------------kpy~C--~~Cgk~F~~~s~L~~H~r~~gek- 184 (556)
+..-|.|..--| ...+..+..+.+|.+.|... .-|.| ..|.| .-++...|-..|.++
T Consensus 268 ~rEhyhcl~e~C-----~ykr~~k~DvirH~~~hkkrdnsL~dgf~rfs~syhC~~~~C~k---sTsdV~~h~nFht~~~ 339 (480)
T KOG4377|consen 268 GREHYHCLNEYC-----FYKRGQKNDVIRHVEIHKKRDNSLIDGFHRFSNSYHCTGQICEK---STSDVLLHDNFHTDKR 339 (480)
T ss_pred cchhhcccCccc-----cccccchhhhHHHHHHHhhcccccccchhhcCccchhhhcccCc---ccccccccCccccccc
Confidence 455677865433 65555688999998888642 23677 45888 334444554443333
Q ss_pred -------ceecc-CC--CccC
Q 008724 185 -------EYKCD-CG--KLFS 195 (556)
Q Consensus 185 -------py~C~-Cg--k~F~ 195 (556)
-|.|. |+ -.|.
T Consensus 340 n~GfrrthfhC~r~gCTdtfK 360 (480)
T KOG4377|consen 340 NNGFRRTHFHCQRIGCTDTFK 360 (480)
T ss_pred cCceecceeEEeccCCccccc
Confidence 37786 55 5554
No 136
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=31.52 E-value=20 Score=34.41 Aligned_cols=33 Identities=15% Similarity=0.684 Sum_probs=25.9
Q ss_pred CcccccccCCccccccccccccccccCCcceecc-CCCccCC
Q 008724 156 EKKWKCEKCSKKYAVQSDWKAHSKICGTREYKCD-CGKLFSR 196 (556)
Q Consensus 156 ekpy~C~~Cgk~F~~~s~L~~H~r~~gekpy~C~-Cgk~F~~ 196 (556)
..-|.|+.|++.|+....+. .-|.|+ ||.....
T Consensus 115 ~~~Y~Cp~C~~rytf~eA~~--------~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 115 NMFFFCPNCHIRFTFDEAME--------YGFRCPQCGEMLEE 148 (178)
T ss_pred CCEEECCCCCcEEeHHHHhh--------cCCcCCCCCCCCee
Confidence 45699999999998887653 469999 9976544
No 137
>KOG0608 consensus Warts/lats-like serine threonine kinases [Cell cycle control, cell division, chromosome partitioning]
Probab=31.07 E-value=59 Score=37.36 Aligned_cols=26 Identities=19% Similarity=0.406 Sum_probs=12.0
Q ss_pred HHHHhHHhhhhcccc-CCCCCCCcCCC
Q 008724 255 QALQLQAVKIEDNNQ-QHHIPPWLACP 280 (556)
Q Consensus 255 QqqQqQqqqqQQQQQ-Qq~~p~~~~~~ 280 (556)
++.+++.++++||++ ++..|-|...+
T Consensus 423 ~v~~~r~lrpe~Qta~~p~hp~~ipq~ 449 (1034)
T KOG0608|consen 423 PVKSKRVLRPEQQTAQQPLHPRWIPQP 449 (1034)
T ss_pred hhHHHHhhCcchhhhccccCccccCCc
Confidence 333444445555544 34455554433
No 138
>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=30.71 E-value=20 Score=33.58 Aligned_cols=9 Identities=22% Similarity=1.017 Sum_probs=4.7
Q ss_pred cccccCCcc
Q 008724 159 WKCEKCSKK 167 (556)
Q Consensus 159 y~C~~Cgk~ 167 (556)
|.|+.||..
T Consensus 129 F~Cp~Cg~~ 137 (158)
T TIGR00373 129 FTCPRCGAM 137 (158)
T ss_pred CcCCCCCCE
Confidence 555555543
No 139
>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=30.63 E-value=25 Score=33.02 Aligned_cols=37 Identities=11% Similarity=0.454 Sum_probs=27.3
Q ss_pred cccCCcccccccCCccccccccccccccccCCcceecc-CCCccCC
Q 008724 152 RKHGEKKWKCEKCSKKYAVQSDWKAHSKICGTREYKCD-CGKLFSR 196 (556)
Q Consensus 152 ~H~~ekpy~C~~Cgk~F~~~s~L~~H~r~~gekpy~C~-Cgk~F~~ 196 (556)
......-|.|+.|+.+|+....+. .-|.|+ ||.....
T Consensus 103 ~e~~~~~Y~Cp~c~~r~tf~eA~~--------~~F~Cp~Cg~~L~~ 140 (158)
T TIGR00373 103 FETNNMFFICPNMCVRFTFNEAME--------LNFTCPRCGAMLDY 140 (158)
T ss_pred hccCCCeEECCCCCcEeeHHHHHH--------cCCcCCCCCCEeee
Confidence 344456689999999888877774 369999 9976443
No 140
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=30.40 E-value=22 Score=32.24 Aligned_cols=15 Identities=20% Similarity=0.594 Sum_probs=12.6
Q ss_pred ccccCCCCCccCChH
Q 008724 82 RFLCEICNKGFQRDQ 96 (556)
Q Consensus 82 ~y~C~~Cgk~F~~~~ 96 (556)
+++|..||+.|..-+
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 578999999998655
No 141
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=29.18 E-value=37 Score=23.69 Aligned_cols=12 Identities=33% Similarity=1.002 Sum_probs=6.4
Q ss_pred cccccccCCccc
Q 008724 157 KKWKCEKCSKKY 168 (556)
Q Consensus 157 kpy~C~~Cgk~F 168 (556)
+..+|..|+..|
T Consensus 24 ~~vrC~~C~~~f 35 (37)
T PF13719_consen 24 RKVRCPKCGHVF 35 (37)
T ss_pred cEEECCCCCcEe
Confidence 345566555554
No 142
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=28.23 E-value=22 Score=37.75 Aligned_cols=72 Identities=15% Similarity=0.100 Sum_probs=40.5
Q ss_pred eeCCCCCcccCCCCCcccCccchhhhhccccCCcccccccCCccccccccccccccccCCcceecc-CC---CccCChhH
Q 008724 124 YVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAHSKICGTREYKCD-CG---KLFSRRDS 199 (556)
Q Consensus 124 y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~~ekpy~C~~Cgk~F~~~s~L~~H~r~~gekpy~C~-Cg---k~F~~~~~ 199 (556)
-.|-.| ++.|.....-..||..+|+-. .=+. ........|..-+..--.+-|.|- |+ +.|..-..
T Consensus 167 t~CLfC-------~~~~k~~e~~~~HM~~~Hgff--IPdr--eYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~slea 235 (390)
T KOG2785|consen 167 TDCLFC-------DKKSKSLEENLKHMFKEHGFF--IPDR--EYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEA 235 (390)
T ss_pred cceeec-------CCCcccHHHHHHHHhhccCCc--CCch--HhhhchhHHHHHHHHHhccCceEEEeccccCcccccHH
Confidence 456666 888999999999999998731 1100 000111111111111112346676 76 77777777
Q ss_pred HHHHHhh
Q 008724 200 FITHRAF 206 (556)
Q Consensus 200 L~~H~~~ 206 (556)
.+.||.-
T Consensus 236 vr~HM~~ 242 (390)
T KOG2785|consen 236 VRAHMRD 242 (390)
T ss_pred HHHHHhh
Confidence 7777753
No 143
>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=28.15 E-value=27 Score=32.06 Aligned_cols=31 Identities=26% Similarity=0.899 Sum_probs=19.5
Q ss_pred ccccccCCccccccccccccccccCCcceecc-CCCccC
Q 008724 158 KWKCEKCSKKYAVQSDWKAHSKICGTREYKCD-CGKLFS 195 (556)
Q Consensus 158 py~C~~Cgk~F~~~s~L~~H~r~~gekpy~C~-Cgk~F~ 195 (556)
.|.|..|+..+.+ |.+. ..+.|.|. |+..|.
T Consensus 123 ~~~C~~C~~~~~r------~~~~-~~~~~~C~~C~~~l~ 154 (157)
T PF10263_consen 123 VYRCPSCGREYKR------HRRS-KRKRYRCGRCGGPLV 154 (157)
T ss_pred EEEcCCCCCEeee------eccc-chhhEECCCCCCEEE
Confidence 4788888876633 3333 33458888 886654
No 144
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=28.01 E-value=32 Score=37.34 Aligned_cols=29 Identities=24% Similarity=0.706 Sum_probs=20.7
Q ss_pred ccccCCccccccccccccccccCCcceecc-CCCccCChh
Q 008724 160 KCEKCSKKYAVQSDWKAHSKICGTREYKCD-CGKLFSRRD 198 (556)
Q Consensus 160 ~C~~Cgk~F~~~s~L~~H~r~~gekpy~C~-Cgk~F~~~~ 198 (556)
+|+.||.+ |+..|.+-|+|. ||+++....
T Consensus 352 ~Cp~Cg~~----------m~S~G~~g~rC~kCg~~~~~~~ 381 (421)
T COG1571 352 VCPRCGGR----------MKSAGRNGFRCKKCGTRARETL 381 (421)
T ss_pred CCCccCCc----------hhhcCCCCcccccccccCCccc
Confidence 68888865 444455588898 998887653
No 145
>PF14353 CpXC: CpXC protein
Probab=27.97 E-value=19 Score=32.18 Aligned_cols=21 Identities=19% Similarity=0.596 Sum_probs=14.1
Q ss_pred ccccccCCccccccccccccc
Q 008724 158 KWKCEKCSKKYAVQSDWKAHS 178 (556)
Q Consensus 158 py~C~~Cgk~F~~~s~L~~H~ 178 (556)
.|.|+.||+.|.-...+.-|-
T Consensus 38 ~~~CP~Cg~~~~~~~p~lY~D 58 (128)
T PF14353_consen 38 SFTCPSCGHKFRLEYPLLYHD 58 (128)
T ss_pred EEECCCCCCceecCCCEEEEc
Confidence 477888887777666655553
No 146
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=27.71 E-value=41 Score=23.97 Aligned_cols=10 Identities=30% Similarity=1.208 Sum_probs=4.5
Q ss_pred cccccCCccc
Q 008724 159 WKCEKCSKKY 168 (556)
Q Consensus 159 y~C~~Cgk~F 168 (556)
|.|..|++.|
T Consensus 29 y~C~~C~~~w 38 (40)
T smart00440 29 YVCTKCGHRW 38 (40)
T ss_pred EEeCCCCCEe
Confidence 4444444433
No 147
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=27.26 E-value=43 Score=36.30 Aligned_cols=37 Identities=22% Similarity=0.452 Sum_probs=26.8
Q ss_pred CCCCccccCCCCCccCChHHHHHHHHhcCCCchhhcccccccCCceeeCCCCC
Q 008724 78 MATNRFLCEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNKVERKKVYVCPEPT 130 (556)
Q Consensus 78 ~~~k~y~C~~Cgk~F~~~~~L~~H~r~H~~p~~~~~~~~~~~~~k~y~C~~C~ 130 (556)
....-|.|+.|.+.|.....|+.-- . ..-.|.|..|+
T Consensus 124 t~~~~Y~Cp~C~kkyt~Lea~~L~~---~-------------~~~~F~C~~C~ 160 (436)
T KOG2593|consen 124 TNVAGYVCPNCQKKYTSLEALQLLD---N-------------ETGEFHCENCG 160 (436)
T ss_pred cccccccCCccccchhhhHHHHhhc---c-------------cCceEEEecCC
Confidence 4456799999999998777765432 1 24569999993
No 148
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=27.24 E-value=27 Score=33.40 Aligned_cols=12 Identities=25% Similarity=0.492 Sum_probs=9.0
Q ss_pred CCceeeCCCCCc
Q 008724 120 RKKVYVCPEPTC 131 (556)
Q Consensus 120 ~~k~y~C~~C~C 131 (556)
.+..|.|++|-|
T Consensus 128 ~~~~~~CPiCl~ 139 (187)
T KOG0320|consen 128 KEGTYKCPICLD 139 (187)
T ss_pred cccccCCCceec
Confidence 455699999954
No 149
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.94 E-value=32 Score=30.16 Aligned_cols=12 Identities=17% Similarity=0.138 Sum_probs=6.6
Q ss_pred cccccccCCccc
Q 008724 157 KKWKCEKCSKKY 168 (556)
Q Consensus 157 kpy~C~~Cgk~F 168 (556)
+|..|++||++|
T Consensus 25 dPiVsPytG~s~ 36 (129)
T COG4530 25 DPIVSPYTGKSY 36 (129)
T ss_pred CccccCcccccc
Confidence 455555555555
No 150
>PRK14873 primosome assembly protein PriA; Provisional
Probab=26.40 E-value=42 Score=38.93 Aligned_cols=24 Identities=21% Similarity=0.739 Sum_probs=14.9
Q ss_pred CCcccccccCCccccccccccccccccCCcceecc-CCCc
Q 008724 155 GEKKWKCEKCSKKYAVQSDWKAHSKICGTREYKCD-CGKL 193 (556)
Q Consensus 155 ~ekpy~C~~Cgk~F~~~s~L~~H~r~~gekpy~C~-Cgk~ 193 (556)
..+..+|.+||+. ..++.|. |+..
T Consensus 407 ~~~~l~Ch~CG~~---------------~~p~~Cp~Cgs~ 431 (665)
T PRK14873 407 AGGTPRCRWCGRA---------------APDWRCPRCGSD 431 (665)
T ss_pred CCCeeECCCCcCC---------------CcCccCCCCcCC
Confidence 3455677777742 1366788 8754
No 151
>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=25.66 E-value=26 Score=24.78 Aligned_cols=9 Identities=22% Similarity=0.995 Sum_probs=4.0
Q ss_pred cccccCCcc
Q 008724 159 WKCEKCSKK 167 (556)
Q Consensus 159 y~C~~Cgk~ 167 (556)
|.|..|++.
T Consensus 29 y~C~~C~~~ 37 (39)
T PF01096_consen 29 YVCCNCGHR 37 (39)
T ss_dssp EEESSSTEE
T ss_pred EEeCCCCCe
Confidence 444444443
No 152
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=25.12 E-value=43 Score=30.74 Aligned_cols=32 Identities=22% Similarity=0.763 Sum_probs=18.7
Q ss_pred ccccccCCccccccccccccccccCCcceecc-CCCccC
Q 008724 158 KWKCEKCSKKYAVQSDWKAHSKICGTREYKCD-CGKLFS 195 (556)
Q Consensus 158 py~C~~Cgk~F~~~s~L~~H~r~~gekpy~C~-Cgk~F~ 195 (556)
.|+|..|+..+. ++.|......|.|. |+-.|.
T Consensus 112 ~y~C~~C~~~~~------~~rr~~~~~~y~C~~C~g~l~ 144 (146)
T smart00731 112 PYRCTGCGQRYL------RVRRSNNVSRYRCGKCGGKLI 144 (146)
T ss_pred EEECCCCCCCCc------eEccccCcceEEcCCCCCEEE
Confidence 577877876653 23332222567887 876553
No 153
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=24.86 E-value=57 Score=34.12 Aligned_cols=63 Identities=19% Similarity=0.442 Sum_probs=0.0
Q ss_pred eeCCCCCcccCCCCCcccCccchhhhhccccCCcccccccCCccccccccccccccc-cCCcc-----------------
Q 008724 124 YVCPEPTCVHHDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAHSKI-CGTRE----------------- 185 (556)
Q Consensus 124 y~C~~C~C~~~~~~k~F~~~s~L~~H~r~H~~ekpy~C~~Cgk~F~~~s~L~~H~r~-~gekp----------------- 185 (556)
|.|+.| +...-.-|..|++|+-......+|.+-.+. ---++
T Consensus 277 y~CP~C---------------------kakvCsLP~eCpiC~ltLVss~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf~ 335 (378)
T KOG2807|consen 277 YFCPQC---------------------KAKVCSLPIECPICSLTLVSSPHLARSYHHLFPLKPFVEIPETEYNGSRFCFA 335 (378)
T ss_pred eeCCcc---------------------cCeeecCCccCCccceeEecchHHHHHHHhhcCCcchhhccccccCCCcceee
Q ss_pred ----------eecc-CCCccCChhHHHHHHhhh
Q 008724 186 ----------YKCD-CGKLFSRRDSFITHRAFC 207 (556)
Q Consensus 186 ----------y~C~-Cgk~F~~~~~L~~H~~~h 207 (556)
|.|. |...|-.--+...|...|
T Consensus 336 C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh 368 (378)
T KOG2807|consen 336 CQGELLSSGRYRCESCKNVFCLDCDVFIHESLH 368 (378)
T ss_pred eccccCCCCcEEchhccceeeccchHHHHhhhh
No 154
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=24.26 E-value=51 Score=38.55 Aligned_cols=24 Identities=21% Similarity=0.617 Sum_probs=16.7
Q ss_pred CcccccccCCccccccccccccccccCCcceecc-CCCc
Q 008724 156 EKKWKCEKCSKKYAVQSDWKAHSKICGTREYKCD-CGKL 193 (556)
Q Consensus 156 ekpy~C~~Cgk~F~~~s~L~~H~r~~gekpy~C~-Cgk~ 193 (556)
.+..+|.+||+. ...|..|. ||-.
T Consensus 460 ~~~L~CH~Cg~~--------------~~~p~~Cp~Cgs~ 484 (730)
T COG1198 460 TGQLRCHYCGYQ--------------EPIPQSCPECGSE 484 (730)
T ss_pred CCeeEeCCCCCC--------------CCCCCCCCCCCCC
Confidence 355778888753 34688898 9865
No 155
>KOG0782 consensus Predicted diacylglycerol kinase [Signal transduction mechanisms]
Probab=23.97 E-value=30 Score=38.55 Aligned_cols=52 Identities=15% Similarity=0.402 Sum_probs=35.1
Q ss_pred ccchhhhhccccCCcccccccCCccccccccccccccccCCcceecc-CCCccCChh
Q 008724 143 LTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAHSKICGTREYKCD-CGKLFSRRD 198 (556)
Q Consensus 143 ~s~L~~H~r~H~~ekpy~C~~Cgk~F~~~s~L~~H~r~~gekpy~C~-Cgk~F~~~~ 198 (556)
...+.+|--.|.....-+|..|+|.|..+-.+..-. .-...|. |...|-.+.
T Consensus 238 E~~fvrHHWVHrrRqeGkC~~CgKgFQQKf~FhsKE----ivAisCSWCKqayH~Kv 290 (1004)
T KOG0782|consen 238 ESGFVRHHWVHRRRQEGKCNTCGKGFQQKFFFHSKE----IVAISCSWCKQAYHLKV 290 (1004)
T ss_pred cccchHHhHhhHhhhccccchhhhhhhhheeecccc----EEEEEehHHHHHhhcch
Confidence 346777766666555568999999998875553221 1235788 988887665
No 156
>PRK14873 primosome assembly protein PriA; Provisional
Probab=23.94 E-value=52 Score=38.15 Aligned_cols=11 Identities=27% Similarity=1.301 Sum_probs=8.8
Q ss_pred cccccccCCcc
Q 008724 157 KKWKCEKCSKK 167 (556)
Q Consensus 157 kpy~C~~Cgk~ 167 (556)
.++.|+.|+..
T Consensus 421 ~p~~Cp~Cgs~ 431 (665)
T PRK14873 421 PDWRCPRCGSD 431 (665)
T ss_pred cCccCCCCcCC
Confidence 57899999864
No 157
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=23.93 E-value=43 Score=24.43 Aligned_cols=11 Identities=27% Similarity=1.078 Sum_probs=7.2
Q ss_pred CcccccccCCc
Q 008724 156 EKKWKCEKCSK 166 (556)
Q Consensus 156 ekpy~C~~Cgk 166 (556)
...|+|..|++
T Consensus 35 ~~~~~C~~C~~ 45 (46)
T PF12760_consen 35 RGRYRCKACRK 45 (46)
T ss_pred CCeEECCCCCC
Confidence 45577777764
No 158
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=23.41 E-value=36 Score=31.08 Aligned_cols=23 Identities=30% Similarity=0.463 Sum_probs=9.6
Q ss_pred eecc-CCCccCChhHHHHHHhhhhchh
Q 008724 186 YKCD-CGKLFSRRDSFITHRAFCDVLA 211 (556)
Q Consensus 186 y~C~-Cgk~F~~~~~L~~H~~~h~~~~ 211 (556)
..|- |||.|.. |++|++.||.+.
T Consensus 73 i~clecGk~~k~---LkrHL~~~~glt 96 (132)
T PF05443_consen 73 IICLECGKKFKT---LKRHLRTHHGLT 96 (132)
T ss_dssp EE-TBT--EESB---HHHHHHHTT-S-
T ss_pred eEEccCCcccch---HHHHHHHccCCC
Confidence 3454 6665543 466666664333
No 159
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=23.21 E-value=60 Score=23.72 Aligned_cols=13 Identities=15% Similarity=0.580 Sum_probs=8.5
Q ss_pred cccccccCCcccc
Q 008724 157 KKWKCEKCSKKYA 169 (556)
Q Consensus 157 kpy~C~~Cgk~F~ 169 (556)
.+.+|+.||...-
T Consensus 18 ~~irC~~CG~rIl 30 (44)
T smart00659 18 DVVRCRECGYRIL 30 (44)
T ss_pred CceECCCCCceEE
Confidence 4577888876533
No 160
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=22.95 E-value=47 Score=33.41 Aligned_cols=14 Identities=21% Similarity=0.695 Sum_probs=10.8
Q ss_pred CCccccCCCCCccC
Q 008724 80 TNRFLCEICNKGFQ 93 (556)
Q Consensus 80 ~k~y~C~~Cgk~F~ 93 (556)
.+.|.|..|...+-
T Consensus 110 drqFaC~~Cd~~Ww 123 (278)
T PF15135_consen 110 DRQFACSSCDHMWW 123 (278)
T ss_pred ceeeeccccchHHH
Confidence 47899999976553
No 161
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=22.90 E-value=45 Score=31.05 Aligned_cols=19 Identities=11% Similarity=0.550 Sum_probs=14.6
Q ss_pred cccccccCCcccccccccc
Q 008724 157 KKWKCEKCSKKYAVQSDWK 175 (556)
Q Consensus 157 kpy~C~~Cgk~F~~~s~L~ 175 (556)
+.-.|..|+++|++-....
T Consensus 27 RRReC~~C~~RFTTfE~~E 45 (156)
T COG1327 27 RRRECLECGERFTTFERAE 45 (156)
T ss_pred hhhcccccccccchhheee
Confidence 4568999999999876543
No 162
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=22.78 E-value=58 Score=25.44 Aligned_cols=8 Identities=25% Similarity=0.849 Sum_probs=4.8
Q ss_pred ceeeCCCC
Q 008724 122 KVYVCPEP 129 (556)
Q Consensus 122 k~y~C~~C 129 (556)
-.|.|+.|
T Consensus 24 ~~F~CPnC 31 (59)
T PRK14890 24 VKFLCPNC 31 (59)
T ss_pred CEeeCCCC
Confidence 34666666
No 163
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=22.38 E-value=39 Score=30.80 Aligned_cols=24 Identities=29% Similarity=0.286 Sum_probs=12.6
Q ss_pred ecc-CCCccCChhHHHHHHhhhhchhcc
Q 008724 187 KCD-CGKLFSRRDSFITHRAFCDVLAEE 213 (556)
Q Consensus 187 ~C~-Cgk~F~~~~~L~~H~~~h~~~~~~ 213 (556)
.|- |||.|. +|+||+.+|+....+
T Consensus 78 icLEDGkkfK---SLKRHL~t~~gmTPd 102 (148)
T COG4957 78 ICLEDGKKFK---SLKRHLTTHYGLTPD 102 (148)
T ss_pred EEeccCcchH---HHHHHHhcccCCCHH
Confidence 454 555553 456666665544433
No 164
>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=22.36 E-value=52 Score=23.59 Aligned_cols=10 Identities=20% Similarity=0.697 Sum_probs=5.8
Q ss_pred cccccccCCc
Q 008724 157 KKWKCEKCSK 166 (556)
Q Consensus 157 kpy~C~~Cgk 166 (556)
....|+.|+.
T Consensus 25 ~~~~CP~Cg~ 34 (42)
T PF09723_consen 25 DPVPCPECGS 34 (42)
T ss_pred CCCcCCCCCC
Confidence 4456666664
No 165
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=21.78 E-value=34 Score=35.24 Aligned_cols=32 Identities=22% Similarity=0.449 Sum_probs=12.1
Q ss_pred cccccCCccccccccccccccc-cCCcceecc-CC
Q 008724 159 WKCEKCSKKYAVQSDWKAHSKI-CGTREYKCD-CG 191 (556)
Q Consensus 159 y~C~~Cgk~F~~~s~L~~H~r~-~gekpy~C~-Cg 191 (556)
.+|..||..-..+-.+.. ... -+.+-+.|+ |+
T Consensus 212 ~~Cp~Cg~~~~~~l~~~~-~e~~~~~rve~C~~C~ 245 (290)
T PF04216_consen 212 IKCPYCGNTDHEKLEYFT-VEGEPAYRVEVCESCG 245 (290)
T ss_dssp TS-TTT---SS-EEE---------SEEEEEETTTT
T ss_pred CCCcCCCCCCCcceeeEe-cCCCCcEEEEECCccc
Confidence 568888865332221110 111 344667888 86
No 166
>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=21.68 E-value=37 Score=37.94 Aligned_cols=10 Identities=30% Similarity=0.790 Sum_probs=5.0
Q ss_pred cccccccCCc
Q 008724 157 KKWKCEKCSK 166 (556)
Q Consensus 157 kpy~C~~Cgk 166 (556)
+...|.+||+
T Consensus 239 ~~l~Ch~Cg~ 248 (505)
T TIGR00595 239 GKLRCHYCGY 248 (505)
T ss_pred CeEEcCCCcC
Confidence 3445555554
No 167
>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=21.54 E-value=39 Score=22.37 Aligned_cols=18 Identities=33% Similarity=0.831 Sum_probs=8.0
Q ss_pred ccccCCccccccccccccc
Q 008724 160 KCEKCSKKYAVQSDWKAHS 178 (556)
Q Consensus 160 ~C~~Cgk~F~~~s~L~~H~ 178 (556)
.|-.|++.| .....+.|.
T Consensus 2 sCiDC~~~F-~~~~y~~Ht 19 (28)
T PF08790_consen 2 SCIDCSKDF-DGDSYKSHT 19 (28)
T ss_dssp EETTTTEEE-EGGGTTT--
T ss_pred eeecCCCCc-CcCCcCCCC
Confidence 455555555 333444443
No 168
>KOG2636 consensus Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=21.31 E-value=53 Score=35.70 Aligned_cols=30 Identities=20% Similarity=0.301 Sum_probs=25.3
Q ss_pred ccccCCCCccccCCCC-CccCChHHHHHHHH
Q 008724 74 PKSLMATNRFLCEICN-KGFQRDQNLQLHRR 103 (556)
Q Consensus 74 ~~~~~~~k~y~C~~Cg-k~F~~~~~L~~H~r 103 (556)
.+.|.-...|.|++|| ++|.-+..+.+|..
T Consensus 393 yKLHGL~~ey~CEICGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 393 YKLHGLDIEYNCEICGNYVYKGRKAFDRHFN 423 (497)
T ss_pred HhhcCCCcccceeeccCccccCcHHHHHHhH
Confidence 4567777889999999 88999999999953
No 169
>KOG3661 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.07 E-value=1.1e+03 Score=27.66 Aligned_cols=26 Identities=19% Similarity=0.124 Sum_probs=18.9
Q ss_pred CCCCCCCchhhHHHHHHHHhcccccc
Q 008724 325 GTTGSQHTSATALLQKAAQMGATMST 350 (556)
Q Consensus 325 ~~~~s~hmSAt~l~q~aa~~~at~~~ 350 (556)
-++-.+.|+--.+.|.-+|.-...+.
T Consensus 121 nht~~~~~~~ql~Qq~~~q~~~r~g~ 146 (1019)
T KOG3661|consen 121 NHTQQSQMLHQLLQQHGAQLPTRPGK 146 (1019)
T ss_pred ccccchHHHHHHHHHhhhhcCCCCCC
Confidence 35667788888888888888655554
No 170
>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=21.02 E-value=52 Score=23.35 Aligned_cols=19 Identities=32% Similarity=0.746 Sum_probs=10.5
Q ss_pred hhccccCCcccccccCCcc
Q 008724 149 HFSRKHGEKKWKCEKCSKK 167 (556)
Q Consensus 149 H~r~H~~ekpy~C~~Cgk~ 167 (556)
..+...+.+.|+|.+|+..
T Consensus 15 ~~~~~~~~~~w~C~~C~~~ 33 (40)
T PF04810_consen 15 FCQFDDGGKTWICNFCGTK 33 (40)
T ss_dssp TSEEETTTTEEEETTT--E
T ss_pred cceEcCCCCEEECcCCCCc
Confidence 3344445567888888764
No 171
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=20.71 E-value=28 Score=40.13 Aligned_cols=49 Identities=12% Similarity=0.276 Sum_probs=0.0
Q ss_pred eCCCCCccc-----CCCCCcccCccchhhhhccccCCcccccccCCccccccccccccc
Q 008724 125 VCPEPTCVH-----HDPSRALGDLTGIKKHFSRKHGEKKWKCEKCSKKYAVQSDWKAHS 178 (556)
Q Consensus 125 ~C~~C~C~~-----~~~~k~F~~~s~L~~H~r~H~~ekpy~C~~Cgk~F~~~s~L~~H~ 178 (556)
+|+.|.-.| ..|+-.|+..+ ++.-..-|.-+|+.|+..|...+.+..|+
T Consensus 645 kCs~Cn~R~Kd~vI~kC~H~FC~~C-----vq~r~etRqRKCP~Cn~aFganDv~~I~l 698 (698)
T KOG0978|consen 645 KCSVCNTRWKDAVITKCGHVFCEEC-----VQTRYETRQRKCPKCNAAFGANDVHRIHL 698 (698)
T ss_pred eCCCccCchhhHHHHhcchHHHHHH-----HHHHHHHhcCCCCCCCCCCCcccccccCC
No 172
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.63 E-value=41 Score=33.44 Aligned_cols=24 Identities=21% Similarity=0.439 Sum_probs=14.2
Q ss_pred cccccccCCccccccccccccccc
Q 008724 157 KKWKCEKCSKKYAVQSDWKAHSKI 180 (556)
Q Consensus 157 kpy~C~~Cgk~F~~~s~L~~H~r~ 180 (556)
+.+.|++|+-.|..+.-+..-.|+
T Consensus 18 k~ieCPvC~tkFkkeev~tgsiRi 41 (267)
T COG1655 18 KTIECPVCNTKFKKEEVKTGSIRI 41 (267)
T ss_pred ceeccCcccchhhhhheeccceeE
Confidence 445666666666666555555554
No 173
>PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 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. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=20.31 E-value=72 Score=22.50 Aligned_cols=22 Identities=27% Similarity=0.779 Sum_probs=9.2
Q ss_pred CccccCCCCCccCChH-HH-HHHH
Q 008724 81 NRFLCEICNKGFQRDQ-NL-QLHR 102 (556)
Q Consensus 81 k~y~C~~Cgk~F~~~~-~L-~~H~ 102 (556)
++|-|++|.+.|.... .. +.|.
T Consensus 2 ~ryyCdyC~~~~~~d~~~~Rk~H~ 25 (38)
T PF06220_consen 2 PRYYCDYCKKYLTHDSPSIRKQHE 25 (38)
T ss_dssp -S-B-TTT--B-S--SHHHHHHHT
T ss_pred cCeecccccceecCCChHHHHHhh
Confidence 4689999999994333 33 5554
No 174
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=20.27 E-value=58 Score=29.53 Aligned_cols=18 Identities=22% Similarity=0.911 Sum_probs=13.9
Q ss_pred CcccccccCCcccccccc
Q 008724 156 EKKWKCEKCSKKYAVQSD 173 (556)
Q Consensus 156 ekpy~C~~Cgk~F~~~s~ 173 (556)
...|+|..|++.|.....
T Consensus 51 ~qRyrC~~C~~tf~~~~~ 68 (129)
T COG3677 51 HQRYKCKSCGSTFTVETG 68 (129)
T ss_pred ccccccCCcCcceeeecc
Confidence 456999999999886543
Done!