Query 047870
Match_columns 102
No_of_seqs 121 out of 943
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 04:01:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047870.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047870hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00808 CBFD_NFYB_HMF: Histon 99.9 3.1E-22 6.7E-27 121.0 8.0 64 22-86 2-65 (65)
2 COG5208 HAP5 CCAAT-binding fac 99.9 3.7E-22 8.1E-27 145.3 5.4 83 18-101 105-187 (286)
3 KOG1657 CCAAT-binding factor, 99.8 1.1E-21 2.4E-26 144.8 5.2 84 17-101 69-152 (236)
4 KOG1659 Class 2 transcription 99.8 6.8E-21 1.5E-25 137.6 7.0 80 19-99 10-89 (224)
5 COG5247 BUR6 Class 2 transcrip 99.8 1.3E-20 2.9E-25 122.5 5.6 80 19-99 20-99 (113)
6 KOG0869 CCAAT-binding factor, 99.6 6.2E-16 1.4E-20 107.5 7.6 83 14-96 24-106 (168)
7 COG5262 HTA1 Histone H2A [Chro 99.6 1.2E-14 2.5E-19 97.0 6.8 79 18-97 22-100 (132)
8 KOG0870 DNA polymerase epsilon 99.6 1E-14 2.2E-19 102.1 6.7 83 15-97 3-86 (172)
9 KOG0871 Class 2 transcription 99.6 2.3E-14 5E-19 98.8 8.2 84 15-98 5-88 (156)
10 cd00074 H2A Histone 2A; H2A is 99.5 3.1E-14 6.8E-19 95.2 8.1 77 20-97 18-94 (115)
11 COG2036 HHT1 Histones H3 and H 99.4 2.6E-13 5.7E-18 87.3 6.1 73 17-91 14-86 (91)
12 KOG1756 Histone 2A [Chromatin 99.4 5.7E-13 1.2E-17 89.8 7.0 80 19-99 24-103 (131)
13 smart00414 H2A Histone 2A. 99.4 2.1E-12 4.6E-17 85.2 7.1 77 20-97 7-83 (106)
14 PLN00154 histone H2A; Provisio 99.4 2.5E-12 5.3E-17 87.9 6.9 78 19-97 35-113 (136)
15 PTZ00017 histone H2A; Provisio 99.3 4.3E-12 9.3E-17 86.7 6.8 76 20-96 25-100 (134)
16 KOG1658 DNA polymerase epsilon 99.3 1.8E-12 3.9E-17 90.0 2.4 80 20-100 57-136 (162)
17 PLN00153 histone H2A; Provisio 99.3 1.6E-11 3.5E-16 83.4 6.4 76 20-96 22-97 (129)
18 PLN00156 histone H2AX; Provisi 99.3 2E-11 4.3E-16 83.8 6.8 76 20-96 27-102 (139)
19 PLN00157 histone H2A; Provisio 99.2 2.2E-11 4.8E-16 83.0 6.3 76 20-96 24-99 (132)
20 COG5150 Class 2 transcription 99.2 9.4E-11 2E-15 79.4 7.7 82 16-97 5-86 (148)
21 smart00803 TAF TATA box bindin 99.1 3.9E-10 8.4E-15 68.5 7.3 64 22-87 2-65 (65)
22 PTZ00252 histone H2A; Provisio 99.1 2.3E-10 5E-15 78.0 6.9 77 20-97 23-102 (134)
23 PF00125 Histone: Core histone 99.1 4.8E-10 1E-14 68.8 6.5 67 21-88 7-74 (75)
24 PLN00035 histone H4; Provision 99.0 1.5E-09 3.3E-14 71.3 7.7 68 21-90 28-95 (103)
25 cd00076 H4 Histone H4, one of 99.0 1.7E-09 3.8E-14 68.8 7.5 67 22-90 13-79 (85)
26 PTZ00015 histone H4; Provision 98.9 9.6E-09 2.1E-13 67.4 7.6 69 20-90 28-96 (102)
27 cd07981 TAF12 TATA Binding Pro 98.9 1.3E-08 2.9E-13 62.7 7.6 67 23-90 2-68 (72)
28 smart00417 H4 Histone H4. 98.8 1E-08 2.2E-13 63.8 5.4 61 22-84 13-73 (74)
29 cd08048 TAF11 TATA Binding Pro 98.4 2.4E-06 5.1E-11 54.4 7.0 68 20-89 14-84 (85)
30 KOG1757 Histone 2A [Chromatin 98.4 4E-07 8.7E-12 60.6 3.5 78 19-96 27-104 (131)
31 smart00428 H3 Histone H3. 98.3 1.6E-06 3.5E-11 57.2 5.7 70 17-86 24-98 (105)
32 PF02969 TAF: TATA box binding 98.2 1E-05 2.2E-10 49.3 7.2 65 21-87 2-66 (66)
33 smart00576 BTP Bromodomain tra 98.1 1.9E-05 4E-10 49.0 7.0 61 28-90 12-72 (77)
34 cd07979 TAF9 TATA Binding Prot 98.1 1.8E-05 3.8E-10 53.0 6.4 68 26-95 5-72 (117)
35 PF15511 CENP-T: Centromere ki 98.0 1.4E-05 3.1E-10 63.4 6.1 63 19-81 348-414 (414)
36 cd08050 TAF6 TATA Binding Prot 98.0 2.9E-05 6.3E-10 60.2 7.4 64 24-89 1-64 (343)
37 PF04719 TAFII28: hTAFII28-lik 98.0 2.7E-05 5.8E-10 50.1 5.9 68 20-88 21-89 (90)
38 PF03847 TFIID_20kDa: Transcri 98.0 6.1E-05 1.3E-09 46.0 7.2 62 26-88 3-64 (68)
39 PF09415 CENP-X: CENP-S associ 97.9 7.1E-05 1.5E-09 46.2 6.8 64 24-87 1-66 (72)
40 PLN00161 histone H3; Provision 97.8 9.1E-05 2E-09 50.8 6.4 66 22-87 58-124 (135)
41 PLN00160 histone H3; Provision 97.8 8.5E-05 1.8E-09 48.4 5.8 69 18-86 17-89 (97)
42 smart00427 H2B Histone H2B. 97.8 0.00016 3.5E-09 46.4 6.9 61 27-88 6-66 (89)
43 KOG1658 DNA polymerase epsilon 97.7 6.7E-05 1.4E-09 52.5 5.0 75 17-97 6-80 (162)
44 PF15630 CENP-S: Kinetochore c 97.7 0.00021 4.6E-09 44.6 6.2 64 28-91 11-75 (76)
45 PLN00121 histone H3; Provision 97.6 0.00017 3.6E-09 49.6 5.7 67 19-86 59-129 (136)
46 PTZ00018 histone H3; Provision 97.6 0.00016 3.4E-09 49.7 5.5 67 19-86 59-129 (136)
47 PF02269 TFIID-18kDa: Transcri 97.6 8.6E-05 1.9E-09 47.8 3.3 71 28-99 7-78 (93)
48 PLN00158 histone H2B; Provisio 97.5 0.00067 1.5E-08 45.4 6.9 63 25-88 30-92 (116)
49 PTZ00463 histone H2B; Provisio 97.4 0.00089 1.9E-08 44.9 6.8 61 27-88 33-93 (117)
50 cd07978 TAF13 The TATA Binding 97.4 0.0014 3E-08 42.2 7.0 72 26-99 6-78 (92)
51 KOG3467 Histone H4 [Chromatin 97.3 0.0019 4E-08 41.5 6.7 65 24-90 31-95 (103)
52 KOG3219 Transcription initiati 97.2 0.00055 1.2E-08 49.5 4.2 69 19-89 109-178 (195)
53 PF15510 CENP-W: Centromere ki 97.1 0.0021 4.6E-08 41.5 5.4 66 21-87 15-94 (102)
54 PF07524 Bromo_TP: Bromodomain 97.0 0.006 1.3E-07 37.5 6.8 61 28-90 12-72 (77)
55 PLN00155 histone H2A; Provisio 96.9 0.0016 3.4E-08 38.7 3.3 36 20-56 22-57 (58)
56 KOG1744 Histone H2B [Chromatin 96.8 0.0062 1.3E-07 41.4 6.4 60 28-88 43-102 (127)
57 KOG1142 Transcription initiati 96.7 0.0033 7.2E-08 47.3 4.9 76 18-94 150-225 (258)
58 KOG1745 Histones H3 and H4 [Ch 96.6 0.0026 5.5E-08 43.8 3.4 65 22-87 66-131 (137)
59 KOG2549 Transcription initiati 95.3 0.081 1.8E-06 43.8 7.1 63 24-88 13-75 (576)
60 KOG3423 Transcription initiati 95.2 0.19 4.1E-06 35.8 7.8 69 20-90 84-166 (176)
61 PF02291 TFIID-31kDa: Transcri 94.8 0.22 4.9E-06 33.9 7.1 67 26-94 16-82 (129)
62 PF05236 TAF4: Transcription i 92.6 0.31 6.8E-06 36.4 5.2 45 26-72 51-95 (264)
63 PF03540 TFIID_30kDa: Transcri 92.5 1.1 2.4E-05 25.9 6.2 48 22-71 2-49 (51)
64 COG5095 TAF6 Transcription ini 92.2 0.49 1.1E-05 37.3 5.8 63 24-88 7-69 (450)
65 cd08045 TAF4 TATA Binding Prot 91.3 0.87 1.9E-05 33.0 6.1 67 20-88 42-118 (212)
66 PF13335 Mg_chelatase_2: Magne 90.9 1.9 4E-05 27.6 6.7 60 20-87 29-94 (96)
67 KOG2389 Predicted bromodomain 87.2 3.1 6.8E-05 32.8 6.7 66 23-90 30-95 (353)
68 COG5248 TAF19 Transcription in 86.2 3.5 7.6E-05 27.6 5.7 70 26-98 13-83 (126)
69 KOG3901 Transcription initiati 84.5 8.2 0.00018 25.5 6.7 60 37-99 23-83 (109)
70 KOG3334 Transcription initiati 83.1 2.1 4.6E-05 29.8 3.7 54 42-95 28-84 (148)
71 TIGR03015 pepcterm_ATPase puta 81.6 2.8 6.2E-05 30.3 4.2 69 22-90 191-267 (269)
72 PRK00411 cdc6 cell division co 81.4 10 0.00022 29.1 7.4 66 24-89 208-282 (394)
73 TIGR00764 lon_rel lon-related 80.1 11 0.00024 31.6 7.6 61 27-88 317-390 (608)
74 COG5162 Transcription initiati 79.0 6.5 0.00014 28.2 5.1 47 44-90 108-187 (197)
75 COG1224 TIP49 DNA helicase TIP 77.0 7.5 0.00016 31.4 5.5 65 22-86 360-429 (450)
76 PF12767 SAGA-Tad1: Transcript 76.2 7 0.00015 28.9 4.9 43 25-69 209-251 (252)
77 KOG4336 TBP-associated transcr 76.1 12 0.00026 29.2 6.2 53 36-88 17-69 (323)
78 TIGR02928 orc1/cdc6 family rep 75.8 16 0.00035 27.6 7.0 66 25-90 201-275 (365)
79 PF13654 AAA_32: AAA domain; P 75.7 4.3 9.3E-05 33.4 3.9 50 40-89 446-506 (509)
80 COG1067 LonB Predicted ATP-dep 73.3 19 0.00041 30.7 7.3 62 36-97 333-408 (647)
81 TIGR00368 Mg chelatase-related 72.4 17 0.00037 29.8 6.6 59 21-87 433-497 (499)
82 PF08369 PCP_red: Proto-chloro 72.2 8.2 0.00018 21.4 3.4 30 56-85 14-44 (45)
83 PF02861 Clp_N: Clp amino term 70.4 5.7 0.00012 21.6 2.5 26 65-90 1-26 (53)
84 TIGR02902 spore_lonB ATP-depen 68.7 25 0.00054 28.9 6.9 64 27-90 267-333 (531)
85 COG1474 CDC6 Cdc6-related prot 65.9 9.5 0.00021 30.0 3.8 69 21-90 185-266 (366)
86 PF10979 DUF2786: Protein of u 64.8 13 0.00029 20.4 3.2 35 25-60 4-38 (43)
87 COG5251 TAF40 Transcription in 64.6 14 0.00029 26.7 4.0 68 18-87 111-179 (199)
88 COG5094 TAF9 Transcription ini 63.3 42 0.00091 23.0 6.0 66 28-95 20-88 (145)
89 KOG2680 DNA helicase TIP49, TB 61.9 24 0.00051 28.2 5.2 62 26-87 361-427 (454)
90 PRK09862 putative ATP-dependen 60.6 44 0.00095 27.6 6.8 49 41-89 438-492 (506)
91 smart00350 MCM minichromosome 59.4 42 0.00091 27.4 6.5 66 21-87 416-502 (509)
92 PRK03992 proteasome-activating 58.0 17 0.00036 28.6 3.9 32 58-89 341-372 (389)
93 PTZ00361 26 proteosome regulat 57.8 16 0.00034 29.5 3.8 32 58-89 393-424 (438)
94 PRK13765 ATP-dependent proteas 56.3 41 0.0009 28.5 6.2 50 39-88 337-399 (637)
95 TIGR01242 26Sp45 26S proteasom 56.2 19 0.00041 27.7 3.9 42 47-88 317-362 (364)
96 PTZ00454 26S protease regulato 55.9 19 0.00041 28.6 3.9 31 58-88 355-385 (398)
97 TIGR01128 holA DNA polymerase 49.6 75 0.0016 23.2 6.1 60 39-98 128-190 (302)
98 COG1222 RPT1 ATP-dependent 26S 47.8 28 0.00061 28.0 3.7 58 30-88 329-391 (406)
99 TIGR02030 BchI-ChlI magnesium 46.8 1.3E+02 0.0029 23.3 7.3 47 41-87 254-307 (337)
100 CHL00081 chlI Mg-protoporyphyr 46.8 1.4E+02 0.003 23.5 7.4 61 25-87 253-320 (350)
101 PRK07452 DNA polymerase III su 46.6 82 0.0018 23.6 6.0 53 38-90 146-200 (326)
102 PRK05907 hypothetical protein; 45.7 66 0.0014 24.7 5.4 53 39-91 151-205 (311)
103 PRK05574 holA DNA polymerase I 45.2 86 0.0019 23.3 5.9 60 40-99 164-226 (340)
104 PRK06585 holA DNA polymerase I 45.0 66 0.0014 24.3 5.3 68 28-98 151-222 (343)
105 KOG1942 DNA helicase, TBP-inte 44.1 32 0.00069 27.4 3.4 66 21-87 365-436 (456)
106 KOG4718 Non-SMC (structural ma 43.1 53 0.0011 24.5 4.3 57 41-97 92-154 (235)
107 PF09123 DUF1931: Domain of un 40.6 14 0.0003 25.5 0.9 41 42-82 13-53 (138)
108 COG1466 HolA DNA polymerase II 38.0 1.2E+02 0.0026 23.2 5.7 54 38-91 156-209 (334)
109 COG3267 ExeA Type II secretory 36.9 99 0.0022 23.7 5.0 57 27-83 208-267 (269)
110 TIGR00635 ruvB Holliday juncti 36.6 1.5E+02 0.0032 21.8 5.9 66 23-88 159-228 (305)
111 TIGR01241 FtsH_fam ATP-depende 36.6 55 0.0012 26.4 3.9 31 58-88 264-294 (495)
112 TIGR02442 Cob-chelat-sub cobal 36.2 2.2E+02 0.0048 24.0 7.4 48 40-87 248-302 (633)
113 PRK00080 ruvB Holliday junctio 34.5 1.8E+02 0.0039 21.9 6.2 69 22-90 179-251 (328)
114 KOG0784 Isocitrate dehydrogena 32.5 29 0.00062 27.7 1.5 31 54-84 182-212 (375)
115 KOG0726 26S proteasome regulat 31.6 41 0.0009 26.8 2.3 31 58-88 395-425 (440)
116 PRK13407 bchI magnesium chelat 31.6 2.5E+02 0.0054 21.8 7.5 62 23-86 235-303 (334)
117 PRK08487 DNA polymerase III su 30.5 1.9E+02 0.004 21.9 5.7 59 27-90 143-201 (328)
118 PRK13406 bchD magnesium chelat 30.3 1.2E+02 0.0025 25.6 4.9 61 25-87 181-248 (584)
119 PF08726 EFhand_Ca_insen: Ca2+ 30.3 78 0.0017 19.1 2.9 37 63-101 9-45 (69)
120 KOG0785 Isocitrate dehydrogena 29.6 99 0.0022 24.5 4.1 45 46-90 168-212 (365)
121 PF08218 Citrate_ly_lig: Citra 29.1 57 0.0012 23.6 2.5 30 72-102 148-177 (182)
122 TIGR02397 dnaX_nterm DNA polym 29.1 1.6E+02 0.0034 22.1 5.1 50 40-90 194-243 (355)
123 PRK10733 hflB ATP-dependent me 29.0 83 0.0018 26.5 3.8 39 49-87 348-390 (644)
124 PHA02943 hypothetical protein; 28.4 1.9E+02 0.0042 20.5 5.0 80 20-100 33-119 (165)
125 PRK07914 hypothetical protein; 28.4 1.7E+02 0.0037 22.1 5.2 52 40-92 146-197 (320)
126 PRK12402 replication factor C 26.2 1.9E+02 0.0042 21.3 5.1 47 40-88 202-248 (337)
127 CHL00176 ftsH cell division pr 26.0 1E+02 0.0022 26.3 3.8 31 58-88 392-422 (638)
128 PRK08691 DNA polymerase III su 26.0 2.6E+02 0.0056 24.4 6.2 57 27-90 186-245 (709)
129 PF08989 DUF1896: Domain of un 25.5 2.3E+02 0.005 19.7 4.9 63 28-99 15-81 (144)
130 KOG0480 DNA replication licens 25.0 3.5E+02 0.0076 23.7 6.7 67 21-87 556-641 (764)
131 PRK06645 DNA polymerase III su 24.7 2.1E+02 0.0046 23.6 5.4 61 27-91 195-258 (507)
132 PRK05629 hypothetical protein; 24.1 3E+02 0.0065 20.6 5.8 53 38-91 142-194 (318)
133 PF05788 Orbi_VP1: Orbivirus R 23.9 1.5E+02 0.0032 27.3 4.5 41 46-87 398-438 (1301)
134 PRK14964 DNA polymerase III su 23.6 1.8E+02 0.0038 24.0 4.7 56 26-88 182-240 (491)
135 TIGR02031 BchD-ChlD magnesium 23.4 4.5E+02 0.0097 22.0 7.1 47 41-87 203-256 (589)
136 PRK02234 recU Holliday junctio 23.0 94 0.002 22.6 2.7 33 64-96 150-187 (195)
137 PRK14955 DNA polymerase III su 22.7 3.3E+02 0.0071 21.3 6.0 52 40-91 204-259 (397)
138 PRK09111 DNA polymerase III su 22.7 2.2E+02 0.0047 24.1 5.1 60 27-90 199-258 (598)
139 PF05066 HARE-HTH: HB1, ASXL, 22.3 71 0.0015 18.7 1.7 33 62-95 4-36 (72)
140 COG0473 LeuB Isocitrate/isopro 21.9 56 0.0012 25.9 1.5 34 54-87 154-187 (348)
141 PF10657 RC-P840_PscD: Photosy 21.9 35 0.00076 23.4 0.3 10 3-12 19-28 (144)
142 PRK02858 germination protease; 21.8 68 0.0015 25.6 1.9 51 45-95 245-306 (369)
143 PF10035 DUF2179: Uncharacteri 21.6 71 0.0015 17.7 1.5 18 24-41 28-45 (55)
144 PF02092 tRNA_synt_2f: Glycyl- 20.3 2.7E+02 0.0058 23.4 5.2 55 44-102 375-441 (548)
145 PF10772 DUF2597: Protein of u 20.0 35 0.00076 23.4 0.0 10 2-11 63-72 (134)
No 1
>PF00808 CBFD_NFYB_HMF: Histone-like transcription factor (CBF/NF-Y) and archaeal histone; InterPro: IPR003958 The CCAAT-binding factor (CBF) is a mammalian transcription factor that binds to a CCAAT motif in the promoters of a wide variety of genes, including type I collagen and albumin. The factor is a heteromeric complex of A and B subunits, both of which are required for DNA-binding [, ]. The subunits can interact in the absence of DNA-binding, conserved regions in each being important in mediating this interaction. The A subunit can be split into 3 domains on the basis of sequence similarity, a non-conserved N-terminal 'A domain'; a highly-conserved central 'B domain' involved in DNA-binding; and a C-terminal 'C domain', which contains a number of glutamine and acidic residues involved in protein-protein interactions []. The A subunit shows striking similarity to the HAP3 subunit of the yeast CCAAT-binding heterotrimeric transcription factor [, ]. The Kluyveromyces lactis HAP3 protein has been predicted to contain a 4-cysteine zinc finger, which is thought to be present in similar HAP3 and CBF subunit A proteins, in which the third cysteine is replaced by a serine []. This domain is found in the CCAAT transcription factor and archaeal histones.; GO: 0043565 sequence-specific DNA binding, 0005622 intracellular; PDB: 1F1E_A 2BYM_D 2BYK_D 1HTA_A 1B67_A 1JFI_B 1KU5_B 1N1J_A 1BFM_A 1B6W_A ....
Probab=99.88 E-value=3.1e-22 Score=121.03 Aligned_cols=64 Identities=48% Similarity=0.614 Sum_probs=59.3
Q ss_pred CCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHH
Q 047870 22 SLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAV 86 (102)
Q Consensus 22 ~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av 86 (102)
.||+++|+|||| .+|++.++|+||.+++++|+|+|+++|+.+|++.|++++||||+|+||..||
T Consensus 2 ~lP~a~vkri~k-~~~~~~~vs~ea~~~i~~a~e~Fi~~l~~~A~~~a~~~~rkti~~~Dv~~Av 65 (65)
T PF00808_consen 2 SLPLARVKRIMK-SDPDVMRVSKEAVEAIAKAAEEFIQYLAKEANEIAQRDKRKTITYEDVAKAV 65 (65)
T ss_dssp SS-HHHHHHHHH-HTSTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEE-HHHHHHHH
T ss_pred CCChHHHHHHhc-cCCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHC
Confidence 699999999999 8899999999999999999999999999999999999999999999999986
No 2
>COG5208 HAP5 CCAAT-binding factor, subunit C [Transcription]
Probab=99.86 E-value=3.7e-22 Score=145.31 Aligned_cols=83 Identities=55% Similarity=0.907 Sum_probs=80.5
Q ss_pred CCCCCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCchhhhhh
Q 047870 18 AGTHSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATDIFDFLLT 97 (102)
Q Consensus 18 ~~~~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~~~FL~d 97 (102)
..+..||++||||+|| .|+++++||.||+++++++||.||.+|+-.||..|++++|+|++..||+.||+..+-||||.|
T Consensus 105 ~k~h~LPlARIkkvMK-tdedVkMisaEaPvlFak~~EiFI~ELTmRAW~~ae~NkRRtLQksDia~Av~kSeMfDFLid 183 (286)
T COG5208 105 LKDHNLPLARIKKVMK-TDEDVKMISAEAPVLFAKITEIFIEELTMRAWINAEENKRRTLQKSDIAAAVKKSEMFDFLID 183 (286)
T ss_pred HHhccCcHHHHHHHHh-cccchhheecccchHHHHHHHHHHHHHHHHHHHHHhHhhhhHHHHHHHHHHHHHHHHHhHHhh
Confidence 3567899999999999 999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hccC
Q 047870 98 LVSE 101 (102)
Q Consensus 98 ~vp~ 101 (102)
+||+
T Consensus 184 ivpr 187 (286)
T COG5208 184 IVPR 187 (286)
T ss_pred hccC
Confidence 9997
No 3
>KOG1657 consensus CCAAT-binding factor, subunit C (HAP5) [Transcription]
Probab=99.85 E-value=1.1e-21 Score=144.79 Aligned_cols=84 Identities=60% Similarity=0.913 Sum_probs=81.4
Q ss_pred CCCCCCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCchhhhh
Q 047870 17 RAGTHSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATDIFDFLL 96 (102)
Q Consensus 17 ~~~~~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~~~FL~ 96 (102)
......||++|||+||| .|+++.+|+.||++++++|||+||.+|+..+|.++..++|+|+++.||..++.+.+.||||.
T Consensus 69 d~~~~~lPlaRiKkimK-~dedv~mI~~Eapvl~aka~E~Fi~elt~~sw~~Tee~~rrtl~~sdia~av~~s~~fdFL~ 147 (236)
T KOG1657|consen 69 DFKNHILPLARIKKIMK-SDEDVSMITAEAPVLFAKACELFITELTLRSWVHTEENKRRTLQKSDIAAAVTQSETFDFLR 147 (236)
T ss_pred chhhccCcHhhcccccc-ccccccccchhHHHHHHHHHHHHHHHHHHHhhhhhcccccccchHHHHHHHhccCCCcccee
Confidence 45578999999999999 99999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhccC
Q 047870 97 TLVSE 101 (102)
Q Consensus 97 d~vp~ 101 (102)
|+||+
T Consensus 148 DivP~ 152 (236)
T KOG1657|consen 148 DIVPR 152 (236)
T ss_pred ccccc
Confidence 99996
No 4
>KOG1659 consensus Class 2 transcription repressor NC2, alpha subunit (DRAP1) [Transcription]
Probab=99.83 E-value=6.8e-21 Score=137.61 Aligned_cols=80 Identities=34% Similarity=0.537 Sum_probs=77.8
Q ss_pred CCCCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCchhhhhhh
Q 047870 19 GTHSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATDIFDFLLTL 98 (102)
Q Consensus 19 ~~~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~~~FL~d~ 98 (102)
....||.+||||||| +|+|+++|++-.|+++++|+|+|++.|+.+++++++..+-|||+..||.+||+.++.||||+|+
T Consensus 10 ~~trfp~aRiKKIMQ-~dEdIGKvaqavPViisralElFl~~l~~~t~~~t~~~~aKt~s~~hlkq~v~~~~~FdFLk~~ 88 (224)
T KOG1659|consen 10 YKTRFPPARIKKIMQ-SDEDIGKVAQAVPVIISRALELFLESLLQKTLEITRSRGAKTVSSSHLKQAVESDPKFDFLKEV 88 (224)
T ss_pred hhccCCHHHHHHHHh-hhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhcCccccCHHHHHHHHhccchhHHHHHH
Confidence 467899999999999 9999999999999999999999999999999999999999999999999999999999999997
Q ss_pred c
Q 047870 99 V 99 (102)
Q Consensus 99 v 99 (102)
|
T Consensus 89 v 89 (224)
T KOG1659|consen 89 V 89 (224)
T ss_pred H
Confidence 6
No 5
>COG5247 BUR6 Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription]
Probab=99.82 E-value=1.3e-20 Score=122.47 Aligned_cols=80 Identities=26% Similarity=0.455 Sum_probs=77.6
Q ss_pred CCCCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCchhhhhhh
Q 047870 19 GTHSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATDIFDFLLTL 98 (102)
Q Consensus 19 ~~~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~~~FL~d~ 98 (102)
-...||++||||||+ .|+|+++|++..|++.++|+|+|+..|...+...|+..+.|.++.++|..|++.++.||||.++
T Consensus 20 ~ktrFP~ar~KkIMQ-~deDiGKV~q~tPVIaskalE~Fl~~iv~~s~k~aR~~~skR~t~e~lk~a~~sdekFdFL~~~ 98 (113)
T COG5247 20 KKTRFPIARLKKIMQ-LDEDIGKVGQSTPVIASKALEMFLTEIVGLSLKEARKKSSKRMTSEFLKRATESDEKFDFLKNM 98 (113)
T ss_pred hhhcCCHHHHHHHHH-hhhhhhhhhhcchHHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHhhhHHHHHHHHH
Confidence 467999999999999 9999999999999999999999999999999999999999999999999999999999999997
Q ss_pred c
Q 047870 99 V 99 (102)
Q Consensus 99 v 99 (102)
+
T Consensus 99 ~ 99 (113)
T COG5247 99 E 99 (113)
T ss_pred H
Confidence 5
No 6
>KOG0869 consensus CCAAT-binding factor, subunit A (HAP3) [Transcription]
Probab=99.64 E-value=6.2e-16 Score=107.47 Aligned_cols=83 Identities=25% Similarity=0.261 Sum_probs=78.7
Q ss_pred ccCCCCCCCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCchh
Q 047870 14 MSGRAGTHSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATDIFD 93 (102)
Q Consensus 14 ~~~~~~~~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~~~ 93 (102)
...+..+.-||++.|-||||...|...+||+||...+..|+.+||..++.+|.+.|++.+||||+.+||.+|+...++-+
T Consensus 24 ~~~reqDr~LPIANV~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~tLGFe~ 103 (168)
T KOG0869|consen 24 LSLREQDRFLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMSTLGFEN 103 (168)
T ss_pred cccchhhhhccHHHHHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHHHcCcHh
Confidence 45678889999999999999999999999999999999999999999999999999999999999999999999999888
Q ss_pred hhh
Q 047870 94 FLL 96 (102)
Q Consensus 94 FL~ 96 (102)
|..
T Consensus 104 Y~e 106 (168)
T KOG0869|consen 104 YAE 106 (168)
T ss_pred HHH
Confidence 765
No 7
>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]
Probab=99.56 E-value=1.2e-14 Score=96.97 Aligned_cols=79 Identities=18% Similarity=0.329 Sum_probs=75.2
Q ss_pred CCCCCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCchhhhhh
Q 047870 18 AGTHSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATDIFDFLLT 97 (102)
Q Consensus 18 ~~~~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~~~FL~d 97 (102)
-..+.||++||+|+|| -+..-++|++.|+++++.++|+.+.++++-|-+.|+..+.|.|+|+||..||.++++++||..
T Consensus 22 ~agl~fpvgrvkr~lk-~~~~~~Rig~~A~Vyl~AvleYL~aEilelAgNaA~d~kkkri~PrHlqlAIrnD~EL~~l~~ 100 (132)
T COG5262 22 KAGLIFPVGRVKRLLK-KGNYRMRIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIPRHLQLAIRNDEELNKLLG 100 (132)
T ss_pred hcCccccHHHHHHHHH-cCccceeecCCcHHHHHHHHHHHHHHHHHHhhhhhhhcCcceechHHHHHHhcCcHHHHHHhh
Confidence 3578999999999999 877789999999999999999999999999999999999999999999999999999999975
No 8
>KOG0870 consensus DNA polymerase epsilon, subunit D [Transcription]
Probab=99.56 E-value=1e-14 Score=102.15 Aligned_cols=83 Identities=28% Similarity=0.328 Sum_probs=77.4
Q ss_pred cCCCCCCCCCHHHHHHHhhhcCCCc-ccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCchh
Q 047870 15 SGRAGTHSLPLARIKKIMKKSGDDV-KMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATDIFD 93 (102)
Q Consensus 15 ~~~~~~~~lP~srVkrImK~~d~~~-~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~~~ 93 (102)
..++.++.||.+.|.|++|+..|+. ..||+||..+|++++.+|+.+|+..|.++|+.++||||+++||.+|+...++-.
T Consensus 3 ~eri~dl~lP~AiI~rlvke~l~E~~vsisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~sadDVl~aL~Eiefs~ 82 (172)
T KOG0870|consen 3 DERIEDLNLPNAIITRLVKEVLPESNVSISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALDEIEFSS 82 (172)
T ss_pred chhHHHhhccHHHHHHHHHHhCccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHHHhchHH
Confidence 4566789999999999999888886 789999999999999999999999999999999999999999999999999988
Q ss_pred hhhh
Q 047870 94 FLLT 97 (102)
Q Consensus 94 FL~d 97 (102)
|+.-
T Consensus 83 f~~p 86 (172)
T KOG0870|consen 83 FVNP 86 (172)
T ss_pred HhhH
Confidence 8753
No 9
>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=99.55 E-value=2.3e-14 Score=98.81 Aligned_cols=84 Identities=17% Similarity=0.234 Sum_probs=77.9
Q ss_pred cCCCCCCCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCchhh
Q 047870 15 SGRAGTHSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATDIFDF 94 (102)
Q Consensus 15 ~~~~~~~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~~~F 94 (102)
+....++.||.+.|.+|+|+..|...++.+||..++-.||-+||..|+.+|.++|.+..+|||.|+||.+|+++.+|-+|
T Consensus 5 ~~~dde~sLPkAtv~KmIke~lP~d~rvakeareliincCvEFI~liSsEAneic~~e~KKTIa~EHV~KALe~LgF~eY 84 (156)
T KOG0871|consen 5 GKEDDELSLPKATVNKMIKEMLPKDVRVAKEARELIINCCVEFINLISSEANEICNKEAKKTIAPEHVIKALENLGFGEY 84 (156)
T ss_pred ccccccccCcHHHHHHHHHHhCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcccCCHHHHHHHHHHcchHHH
Confidence 34567899999999999998899667899999999999999999999999999999999999999999999999999998
Q ss_pred hhhh
Q 047870 95 LLTL 98 (102)
Q Consensus 95 L~d~ 98 (102)
+.+.
T Consensus 85 iee~ 88 (156)
T KOG0871|consen 85 IEEA 88 (156)
T ss_pred HHHH
Confidence 8754
No 10
>cd00074 H2A Histone 2A; H2A is a subunit of the nucleosome. The nucleosome is an octamer containing two H2A, H2B, H3, and H4 subunits. The H2A subunit performs essential roles in maintaining structural integrity of the nucleosome, chromatin condensation, and binding of specific chromatin-associated proteins.
Probab=99.55 E-value=3.1e-14 Score=95.18 Aligned_cols=77 Identities=18% Similarity=0.314 Sum_probs=72.0
Q ss_pred CCCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCchhhhhh
Q 047870 20 THSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATDIFDFLLT 97 (102)
Q Consensus 20 ~~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~~~FL~d 97 (102)
.+.||++||.|+|| ...-..+|+..|+++++.++|+++.++++.|.+.|+..++++|+++||..|+.++++|+.|..
T Consensus 18 gL~fPV~ri~R~Lk-~~~~a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lAi~nD~EL~~L~~ 94 (115)
T cd00074 18 GLQFPVGRIHRYLK-KGRYAERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLAVRNDEELNKLLK 94 (115)
T ss_pred CccCcHHHHHHHHH-cCccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHHHhccHHHHHHHc
Confidence 78999999999999 654557999999999999999999999999999999999999999999999999999997654
No 11
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Probab=99.44 E-value=2.6e-13 Score=87.32 Aligned_cols=73 Identities=25% Similarity=0.397 Sum_probs=67.5
Q ss_pred CCCCCCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCc
Q 047870 17 RAGTHSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATDI 91 (102)
Q Consensus 17 ~~~~~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~ 91 (102)
+..+..||.+.|.||||+..++ ++|.+|...++.++|.|+..+++.|...|.+.|||||+.+||..|++..++
T Consensus 14 ~~~~~~Lp~apv~Ri~r~~~~~--Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI~la~~~~~~ 86 (91)
T COG2036 14 RSTDLLLPKAPVRRILRKAGAE--RVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDIKLALKRLGR 86 (91)
T ss_pred hhhhhhcCchHHHHHHHHHhHH--HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHHHhcc
Confidence 5567899999999999966665 999999999999999999999999999999999999999999999987654
No 12
>KOG1756 consensus Histone 2A [Chromatin structure and dynamics]
Probab=99.42 E-value=5.7e-13 Score=89.83 Aligned_cols=80 Identities=16% Similarity=0.310 Sum_probs=74.8
Q ss_pred CCCCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCchhhhhhh
Q 047870 19 GTHSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATDIFDFLLTL 98 (102)
Q Consensus 19 ~~~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~~~FL~d~ 98 (102)
..++||++||.|+|| ...-..+|+..|+++++.++|+...++++.|-..|+.+++..|+|+||..||.+++++.||.+-
T Consensus 24 agl~fPvgri~r~Lr-~~~~~~ri~~gapV~laavLeYL~Aeile~agnaardnkk~ri~PrH~~lAI~NDeEL~~lL~~ 102 (131)
T KOG1756|consen 24 AGLQFPVGRIHRLLR-KGRYAQRVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRITPRHLQLAIRNDEELNKLLGK 102 (131)
T ss_pred cccccCHHHHHHHHH-ccchhhhccCCChHHHHHHHHHHHHHHHHHhHHHhhhcCccccChHHHHHHHhCcHHHHHHhcc
Confidence 478999999999999 6666689999999999999999999999999999999999999999999999999999999764
Q ss_pred c
Q 047870 99 V 99 (102)
Q Consensus 99 v 99 (102)
+
T Consensus 103 v 103 (131)
T KOG1756|consen 103 V 103 (131)
T ss_pred c
Confidence 3
No 13
>smart00414 H2A Histone 2A.
Probab=99.37 E-value=2.1e-12 Score=85.24 Aligned_cols=77 Identities=18% Similarity=0.345 Sum_probs=71.1
Q ss_pred CCCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCchhhhhh
Q 047870 20 THSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATDIFDFLLT 97 (102)
Q Consensus 20 ~~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~~~FL~d 97 (102)
.+.||++||.|.|| ...-..+|+..|+++++.++|+++.++.+-|.+.++..+++.|+++||..|+.++++++.|..
T Consensus 7 gL~fPVgRi~r~Lk-~~~~~~Rv~~~A~VyLaAvLEYLtaEILeLagn~a~~~k~~rItp~hi~lAi~nD~EL~~L~~ 83 (106)
T smart00414 7 GLQFPVGRIHRLLR-KGTYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLAIRNDEELNKLLK 83 (106)
T ss_pred CccCchHHHHHHHH-cCccccccccccHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccchHHHhhhccCCHHHHHHHc
Confidence 68999999999999 655567999999999999999999999999999999999999999999999999999985543
No 14
>PLN00154 histone H2A; Provisional
Probab=99.36 E-value=2.5e-12 Score=87.90 Aligned_cols=78 Identities=14% Similarity=0.183 Sum_probs=71.6
Q ss_pred CCCCCCHHHHHHHhhhcCC-CcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCchhhhhh
Q 047870 19 GTHSLPLARIKKIMKKSGD-DVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATDIFDFLLT 97 (102)
Q Consensus 19 ~~~~lP~srVkrImK~~d~-~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~~~FL~d 97 (102)
..++||++||.|++| ... ...+|+..|+++++..+|+++.++++-|.+.|+..+++.|+++||..||.++++|+.|..
T Consensus 35 AgL~FPVgRi~r~Lk-~g~~~~~RVga~ApVYLAAVLEYLtAEVLELAGNaA~d~kk~RItPrHi~lAIrnDeEL~~Ll~ 113 (136)
T PLN00154 35 AGLQFPVGRIHRQLK-QRVSAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIK 113 (136)
T ss_pred cCccCchHHHHHHHH-hhhhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhCCceecHHHhhhhccCcHHHHHHhc
Confidence 378999999999999 543 346999999999999999999999999999999999999999999999999999997654
No 15
>PTZ00017 histone H2A; Provisional
Probab=99.33 E-value=4.3e-12 Score=86.71 Aligned_cols=76 Identities=17% Similarity=0.329 Sum_probs=71.3
Q ss_pred CCCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCchhhhh
Q 047870 20 THSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATDIFDFLL 96 (102)
Q Consensus 20 ~~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~~~FL~ 96 (102)
.+.||++||.|.|| ...-..+|+..|+++++.++|+++.++.+-|.+.++..+++.|+++||..||.++++|+.|.
T Consensus 25 gL~FPVgRi~R~Lk-~g~~a~RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk~RItPrHi~lAI~nDeEL~~Ll 100 (134)
T PTZ00017 25 GLQFPVGRVHRYLK-KGRYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKRITPRHIQLAIRNDEELNKLL 100 (134)
T ss_pred CcccchHHHHHHHh-ccchhccccccchhhhHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHhhccCcHHHHHHH
Confidence 78999999999999 55455699999999999999999999999999999999999999999999999999999776
No 16
>KOG1658 consensus DNA polymerase epsilon, subunit C [Replication, recombination and repair]
Probab=99.27 E-value=1.8e-12 Score=90.02 Aligned_cols=80 Identities=38% Similarity=0.549 Sum_probs=77.0
Q ss_pred CCCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCchhhhhhhc
Q 047870 20 THSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATDIFDFLLTLV 99 (102)
Q Consensus 20 ~~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~~~FL~d~v 99 (102)
.++||++||+.+++ .+|++.....|+.+++++++|+|++.|...++..++..+|+|++..|+..+|+.-+.|.||.+..
T Consensus 57 l~rLpL~rik~vvk-l~pdl~l~~dea~~l~a~aaelfi~~Ln~~~~~~~q~~k~kt~qr~d~D~ai~~~de~~fle~~~ 135 (162)
T KOG1658|consen 57 LSRLPLARIKQVVK-LDPDLTLLNDEASQLIAKAAELFIQELNDVAYTTAQLRKRKTEQRRDYDTAIEAVDEFAFLEGAL 135 (162)
T ss_pred hhhccHHHHHhhcc-CCcchhhhhhHHHHHHHHHHHHHHHHHHhccchhHHHHHhhhhhhhcccccccchHHHHHHhhhc
Confidence 47999999999999 99999999999999999999999999999999999999999999999999999999999998876
Q ss_pred c
Q 047870 100 S 100 (102)
Q Consensus 100 p 100 (102)
|
T Consensus 136 d 136 (162)
T KOG1658|consen 136 D 136 (162)
T ss_pred c
Confidence 5
No 17
>PLN00153 histone H2A; Provisional
Probab=99.26 E-value=1.6e-11 Score=83.36 Aligned_cols=76 Identities=18% Similarity=0.319 Sum_probs=70.7
Q ss_pred CCCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCchhhhh
Q 047870 20 THSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATDIFDFLL 96 (102)
Q Consensus 20 ~~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~~~FL~ 96 (102)
.++||++||.|.|+ ...-..+|+..|+++++.++|+++.++.+-|.+.|...+++.|+|+||..||.++++++-|.
T Consensus 22 gL~FpVgRi~R~Lr-~g~~a~Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~nDeEL~~Ll 97 (129)
T PLN00153 22 GLQFPVGRIARYLK-KGKYAERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIVPRHIQLAIRNDEELGKLL 97 (129)
T ss_pred CcccchHHHHHHHh-cCchhhccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccChHHHHhhccCcHHHHHHH
Confidence 78999999999999 54445799999999999999999999999999999999999999999999999999998554
No 18
>PLN00156 histone H2AX; Provisional
Probab=99.25 E-value=2e-11 Score=83.76 Aligned_cols=76 Identities=20% Similarity=0.334 Sum_probs=70.5
Q ss_pred CCCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCchhhhh
Q 047870 20 THSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATDIFDFLL 96 (102)
Q Consensus 20 ~~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~~~FL~ 96 (102)
.++||++||.|.|+ ...-..+|+..|+++++.++|+.+.++++-|.+.|...+++.|+|+||..||.++++|+-|.
T Consensus 27 gL~FPVgRi~R~Lk-~g~ya~RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~RItPrHi~lAIrnDeEL~~Ll 102 (139)
T PLN00156 27 GLQFPVGRIARFLK-AGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRNDEELSKLL 102 (139)
T ss_pred CcccchHHHHHHHh-cCChhhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHhhccCcHHHHHHH
Confidence 78999999999999 54445699999999999999999999999999999999999999999999999999998554
No 19
>PLN00157 histone H2A; Provisional
Probab=99.24 E-value=2.2e-11 Score=82.97 Aligned_cols=76 Identities=18% Similarity=0.315 Sum_probs=70.3
Q ss_pred CCCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCchhhhh
Q 047870 20 THSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATDIFDFLL 96 (102)
Q Consensus 20 ~~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~~~FL~ 96 (102)
.+.||++||.|.|| ...-..+|+..|+++++.++|+++.++++-|.+.|...+++.|+++||..||.++++|+-|.
T Consensus 24 gL~FPVgRi~R~Lk-~g~~a~RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~nDeEL~~Ll 99 (132)
T PLN00157 24 GLQFPVGRIARYLK-AGKYATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSRIVPRHIQLAVRNDEELSKLL 99 (132)
T ss_pred CcccchHHHHHHHh-cCchhhhcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHhhcccCcHHHHHHH
Confidence 78999999999999 54445799999999999999999999999999999999999999999999999999988544
No 20
>COG5150 Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=99.20 E-value=9.4e-11 Score=79.35 Aligned_cols=82 Identities=20% Similarity=0.288 Sum_probs=75.9
Q ss_pred CCCCCCCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCchhhh
Q 047870 16 GRAGTHSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATDIFDFL 95 (102)
Q Consensus 16 ~~~~~~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~~~FL 95 (102)
-......||.+.|++++.+..|..-.+++||..++-.||=+||.-|+.+|.+.|....+|||.|+||.+|+++.++-+|+
T Consensus 5 ~~dDe~sLPKATVqKMvS~iLp~dl~ftKearei~in~cieFi~~lsseAne~ce~EaKKTIa~EHviKALenLef~eyi 84 (148)
T COG5150 5 KNDDENSLPKATVQKMVSSILPKDLVFTKEAREIFINACIEFINMLSSEANEACEEEAKKTIAYEHVIKALENLEFEEYI 84 (148)
T ss_pred cccccccCcHHHHHHHHHHhccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHhccHHHHH
Confidence 35567899999999999977887788999999999999999999999999999999999999999999999999998887
Q ss_pred hh
Q 047870 96 LT 97 (102)
Q Consensus 96 ~d 97 (102)
..
T Consensus 85 ~~ 86 (148)
T COG5150 85 ES 86 (148)
T ss_pred HH
Confidence 64
No 21
>smart00803 TAF TATA box binding protein associated factor. TAFs (TATA box binding protein associated factors) are part of the transcription initiation factor TFIID multimeric protein complex. TFIID is composed of the TATA box binding protein (TBP) and a number of TAFs. The TAFs provide binding sites for many different transcriptional activators and co-activators that modulate transcription initiation by Pol II. TAF proteins adopt a histone-like fold.
Probab=99.12 E-value=3.9e-10 Score=68.47 Aligned_cols=64 Identities=28% Similarity=0.368 Sum_probs=59.4
Q ss_pred CCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHh
Q 047870 22 SLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVI 87 (102)
Q Consensus 22 ~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~ 87 (102)
.+|.+.|++|.+ .. ++.++|.|+...++..+|+|+..++++|...+++.+||||+.+||..|++
T Consensus 2 ~~p~~~i~ria~-~~-Gi~ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~Alk 65 (65)
T smart00803 2 WLPKETIKDVAE-SL-GIGNLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSALR 65 (65)
T ss_pred CCCHHHHHHHHH-HC-CCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHHhC
Confidence 589999999999 53 35689999999999999999999999999999999999999999999874
No 22
>PTZ00252 histone H2A; Provisional
Probab=99.12 E-value=2.3e-10 Score=78.01 Aligned_cols=77 Identities=21% Similarity=0.287 Sum_probs=69.2
Q ss_pred CCCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhh--CCCCeecHHHHHHHHhcCCchh-hhh
Q 047870 20 THSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQ--GKRRTLLKDDVASAVIATDIFD-FLL 96 (102)
Q Consensus 20 ~~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~--~~rktI~~~di~~av~~~~~~~-FL~ 96 (102)
.++||++||.|.++ ...-..+|+..|+++++.++|+...++.+-|.+.|.. .+++.|+++||..||.++++|+ +|.
T Consensus 23 GL~FPVgRi~R~Lr-~g~ya~RIga~ApVYLAAVLEYLtaEVLELAgnaa~d~~~kk~RItPrHi~lAIrNDeEL~~Ll~ 101 (134)
T PTZ00252 23 GLIFPVGRVGSLLR-RGQYARRIGASGAVYMAAVLEYLTAELLELSVKAAAQQAKKPKRLTPRTVTLAVRHDDDLGSLLK 101 (134)
T ss_pred CccCchHHHHHHHH-cCCcccccCCccHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccccHHHHHhhccChHHHHHHHc
Confidence 78999999999999 5554579999999999999999999999999999865 6889999999999999999988 444
Q ss_pred h
Q 047870 97 T 97 (102)
Q Consensus 97 d 97 (102)
+
T Consensus 102 ~ 102 (134)
T PTZ00252 102 N 102 (134)
T ss_pred C
Confidence 4
No 23
>PF00125 Histone: Core histone H2A/H2B/H3/H4 histone h2a signature histone h2b signature histone h3 signature histone h4 signature; InterPro: IPR007125 The core histones together with some other DNA binding proteins appear to form a superfamily defined by a common fold and distant sequence similarities [, ]. Some proteins contain local homology domains related to the histone fold [].; GO: 0003677 DNA binding; PDB: 2YFW_D 2YFV_B 1U35_H 2F8N_D 2PYO_D 2NQB_D 3AN2_C 3AZJ_C 3AV1_G 3AZM_G ....
Probab=99.08 E-value=4.8e-10 Score=68.76 Aligned_cols=67 Identities=21% Similarity=0.279 Sum_probs=57.3
Q ss_pred CCCCHHHHHHHhhhcCCCc-ccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhc
Q 047870 21 HSLPLARIKKIMKKSGDDV-KMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIA 88 (102)
Q Consensus 21 ~~lP~srVkrImK~~d~~~-~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~ 88 (102)
..+|+.||.|-+. .+-.. .++|++|+.+|..++|.|+..+...|...|...+|+||+++||..|+..
T Consensus 7 ~~~~~~r~~r~i~-~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~tI~~~DI~~A~r~ 74 (75)
T PF00125_consen 7 PKFPFSRLLREIG-EEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRKTITPRDIQLAVRI 74 (75)
T ss_dssp SHHHHHHHHHHHH-HTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBSEEGHHHHHHHHHH
T ss_pred CceEEeeeeehhh-cccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCcEecHHHHHHHHhc
Confidence 4566777776666 43333 4899999999999999999999999999999999999999999999864
No 24
>PLN00035 histone H4; Provisional
Probab=99.03 E-value=1.5e-09 Score=71.28 Aligned_cols=68 Identities=22% Similarity=0.313 Sum_probs=62.8
Q ss_pred CCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCC
Q 047870 21 HSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATD 90 (102)
Q Consensus 21 ~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~ 90 (102)
..||.+.|+||++.. .+.+||.++...+..++|.|+..++.+|...|++.+||||+.+||..|++...
T Consensus 28 ~~ipk~~IrRLARr~--GvkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA~RKTV~~~DV~~Alkr~g 95 (103)
T PLN00035 28 QGITKPAIRRLARRG--GVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQG 95 (103)
T ss_pred ccCCHHHHHHHHHHc--CcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHcC
Confidence 349999999999944 36899999999999999999999999999999999999999999999998754
No 25
>cd00076 H4 Histone H4, one of the four histones, along with H2A, H2B and H3, which forms the eukaryotic nucleosome core; along with H3, it plays a central role in nucleosome formation; histones bind to DNA and wrap the genetic material into "beads on a string" in which DNA (the string) is wrapped around small blobs of histones (the beads) at regular intervals; play a role in the inheritance of specialized chromosome structures and the control of gene activity; defects in the establishment of proper chromosome structure by histones may activate or silence genes aberrantly and thus lead to disease; the sequence of histone H4 has remained almost invariant in more than 2 billion years of evolution
Probab=99.03 E-value=1.7e-09 Score=68.85 Aligned_cols=67 Identities=24% Similarity=0.335 Sum_probs=62.4
Q ss_pred CCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCC
Q 047870 22 SLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATD 90 (102)
Q Consensus 22 ~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~ 90 (102)
.+|.+-|+||++ .. .+.+||.++...+..+++.|+..++.+|...|++.+||||+.+||..|++...
T Consensus 13 gi~k~~I~RLar-r~-GvkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr~g 79 (85)
T cd00076 13 GITKPAIRRLAR-RG-GVKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKRQG 79 (85)
T ss_pred cCCHHHHHHHHH-Hc-CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHCC
Confidence 499999999999 43 37899999999999999999999999999999999999999999999998755
No 26
>PTZ00015 histone H4; Provisional
Probab=98.90 E-value=9.6e-09 Score=67.40 Aligned_cols=69 Identities=23% Similarity=0.318 Sum_probs=63.2
Q ss_pred CCCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCC
Q 047870 20 THSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATD 90 (102)
Q Consensus 20 ~~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~ 90 (102)
...+|.+.|+||++ .. .+.+||.++...+..++|.|+..++.+|...|++.+||||+.+||..|++...
T Consensus 28 i~gI~k~~IrRLar-r~-GvkRIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt~~DV~~AlKr~g 96 (102)
T PTZ00015 28 IRGITKGAIRRLAR-RG-GVKRISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVTAMDVVYALKRQG 96 (102)
T ss_pred ccCCCHHHHHHHHH-Hc-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHhcC
Confidence 34699999999999 43 46899999999999999999999999999999999999999999999998754
No 27
>cd07981 TAF12 TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of the seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs function such as serving as activator-bind
Probab=98.89 E-value=1.3e-08 Score=62.70 Aligned_cols=67 Identities=12% Similarity=0.221 Sum_probs=61.9
Q ss_pred CCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCC
Q 047870 23 LPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATD 90 (102)
Q Consensus 23 lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~ 90 (102)
++...+..++|+.||. .+++.+|..++...+|.|+..++..|...|++.||+||..+||.-++++.-
T Consensus 2 ~~k~~l~~lv~~id~~-~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~r~~ 68 (72)
T cd07981 2 LTKRKLQELLKEIDPR-EQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSDTLEVKDVQLHLERNW 68 (72)
T ss_pred CcHHHHHHHHHhhCCC-CCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhc
Confidence 5677899999977876 789999999999999999999999999999999999999999999998754
No 28
>smart00417 H4 Histone H4.
Probab=98.82 E-value=1e-08 Score=63.76 Aligned_cols=61 Identities=25% Similarity=0.332 Sum_probs=56.5
Q ss_pred CCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHH
Q 047870 22 SLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVAS 84 (102)
Q Consensus 22 ~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~ 84 (102)
.+|.+.|+||++ .. .+.+||.++...+...+|.|+..++.+|...+++.+||||+.+||..
T Consensus 13 gI~k~~IrRLaR-r~-GvkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~~ 73 (74)
T smart00417 13 GITKPAIRRLAR-RG-GVKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVVY 73 (74)
T ss_pred CCCHHHHHHHHH-Hc-CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHhee
Confidence 589999999999 43 46799999999999999999999999999999999999999999864
No 29
>cd08048 TAF11 TATA Binding Protein (TBP) Associated Factor 11 (TAF11) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 11 (TAF11) is one of several TAFs that bind TBP and are involved in forming the Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAF orthologs and paralogs. Several hypothes
Probab=98.37 E-value=2.4e-06 Score=54.40 Aligned_cols=68 Identities=18% Similarity=0.247 Sum_probs=59.9
Q ss_pred CCCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCC---CeecHHHHHHHHhcC
Q 047870 20 THSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKR---RTLLKDDVASAVIAT 89 (102)
Q Consensus 20 ~~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~r---ktI~~~di~~av~~~ 89 (102)
...||.+.|||||+ ..-+ ..++.+...+|+..+.+|+.+|+++|.++..+.+. .-|+|+||..|....
T Consensus 14 ra~f~k~~iKr~~~-~~~~-~~v~~~v~i~v~glaKvFVGeivE~A~~V~~~~~~~~~~Pl~P~HireA~rrl 84 (85)
T cd08048 14 RSSFPKAAIKRLIQ-SVTG-QSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGEANTGPLQPRHLREAYRRL 84 (85)
T ss_pred HhhccHHHHHHHHH-HHcC-CCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCCcHHHHHHHHHh
Confidence 34599999999999 5544 68999999999999999999999999999888665 899999999998653
No 30
>KOG1757 consensus Histone 2A [Chromatin structure and dynamics]
Probab=98.37 E-value=4e-07 Score=60.62 Aligned_cols=78 Identities=14% Similarity=0.193 Sum_probs=71.2
Q ss_pred CCCCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCchhhhh
Q 047870 19 GTHSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATDIFDFLL 96 (102)
Q Consensus 19 ~~~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~~~FL~ 96 (102)
..++||+.||.|.+|.-....+++...+.+..+..+|+...++++-|-+.++.-+-|.|+|+|+.-||.-+|++|-|.
T Consensus 27 aGlqFpVgRihr~LK~r~t~h~rVGataavy~aaileYLTaEVLeLAgNasKdLKvKRitprHlqLAiRGDeELDtLI 104 (131)
T KOG1757|consen 27 AGLQFPVGRIHRHLKTRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLI 104 (131)
T ss_pred cccccchHHHHHHHHHhcccccccchHHHHHHHHHHHHHHHHHHHHcccccccceeeeccchhheeeecCcHHHHHHH
Confidence 468999999999999555667799999999999999999999999999999999999999999999999999999774
No 31
>smart00428 H3 Histone H3.
Probab=98.33 E-value=1.6e-06 Score=57.17 Aligned_cols=70 Identities=17% Similarity=0.212 Sum_probs=53.9
Q ss_pred CCCCCCCCHHHH----HHHhhhcCC-CcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHH
Q 047870 17 RAGTHSLPLARI----KKIMKKSGD-DVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAV 86 (102)
Q Consensus 17 ~~~~~~lP~srV----krImK~~d~-~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av 86 (102)
...++.+|.... +.|+++..+ +.-+++.+|..+|..++|.|+-.+.+.|+.+|.+.+|.||+++||.-+.
T Consensus 24 kst~lLI~k~pF~RLVREI~~~~~~~~~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~~kDi~La~ 98 (105)
T smart00428 24 KSTDLLIRKAPFQRLVREIAQKFTTGVDLRFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIMPKDIQLAR 98 (105)
T ss_pred cCcccccccccHHHHHHHHHHHcCCCCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCcHhhHHHHH
Confidence 334444444443 444442222 1348999999999999999999999999999999999999999998775
No 32
>PF02969 TAF: TATA box binding protein associated factor (TAF); InterPro: IPR004823 The TATA box binding protein associated factor (TAF) is part of the transcription initiation factor TFIID multimeric protein complex. TFIID plays a central role in mediating promoter responses to various activators and repressors. It binds tightly to TAFII-250 and directly interacts with TAFII-40. TFIID is composed of TATA binding protein (TBP)and a number of TBP-associated factors (TAFS). TAF proteins adopt a histone-like fold.; GO: 0006352 transcription initiation, DNA-dependent, 0005634 nucleus; PDB: 1TAF_B.
Probab=98.22 E-value=1e-05 Score=49.29 Aligned_cols=65 Identities=23% Similarity=0.322 Sum_probs=50.8
Q ss_pred CCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHh
Q 047870 21 HSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVI 87 (102)
Q Consensus 21 ~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~ 87 (102)
..||...||-+.. +- ++..++.|+...|+.-+|+-+.++.++|..++.+.+|++++.+||..|++
T Consensus 2 s~~~~esvk~iAe-s~-Gi~~l~de~a~~La~dveyrlreiiq~a~kfm~hskR~~Lt~~Di~~ALr 66 (66)
T PF02969_consen 2 SVFSQESVKDIAE-SL-GISNLSDEAAKALAEDVEYRLREIIQEALKFMRHSKRTKLTTDDINSALR 66 (66)
T ss_dssp ----HHHHHHHHH-HT-T---B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHH-
T ss_pred CcCCHHHHHHHHH-Hc-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHhC
Confidence 3578899999988 53 35689999999999999999999999999999999999999999999974
No 33
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=98.12 E-value=1.9e-05 Score=49.03 Aligned_cols=61 Identities=15% Similarity=0.182 Sum_probs=54.2
Q ss_pred HHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCC
Q 047870 28 IKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATD 90 (102)
Q Consensus 28 VkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~ 90 (102)
|-+|++.. +...++..|...++..++.|+..|++.+...|...||++.++.||..|+++..
T Consensus 12 Vaqil~~~--Gf~~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~~~g 72 (77)
T smart00576 12 VAQILESA--GFDSFQESALETLTDILQSYIQELGRTAHSYAELAGRTEPNLGDVVLALENLG 72 (77)
T ss_pred HHHHHHHc--CccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhC
Confidence 66778833 34589999999999999999999999999999999999999999999998754
No 34
>cd07979 TAF9 TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. The TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAFs orthologs and paralogs. Human TAF9 has a paralogue gene (TAF9L) whi
Probab=98.06 E-value=1.8e-05 Score=53.02 Aligned_cols=68 Identities=12% Similarity=0.111 Sum_probs=58.9
Q ss_pred HHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCchhhh
Q 047870 26 ARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATDIFDFL 95 (102)
Q Consensus 26 srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~~~FL 95 (102)
.-|.+|+|+. ++..++.+++..+..-++.++..++.+|...|++.||+||+.+||.-|++..-.+.|-
T Consensus 5 ~~v~~iLk~~--Gv~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~r~~~~f~ 72 (117)
T cd07979 5 RVIAAILKSM--GITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQSRVDYSFT 72 (117)
T ss_pred HHHHHHHHHC--CCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhccCCC
Confidence 3588999933 4568999999999999999999999999999999999999999999999875555443
No 35
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T.
Probab=98.01 E-value=1.4e-05 Score=63.41 Aligned_cols=63 Identities=24% Similarity=0.277 Sum_probs=46.9
Q ss_pred CCCCCCHHHHHHHhhhcCC----CcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHH
Q 047870 19 GTHSLPLARIKKIMKKSGD----DVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDD 81 (102)
Q Consensus 19 ~~~~lP~srVkrImK~~d~----~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~d 81 (102)
....||.+-||+++...-. -.++|+++|..+|.+|+++|-++|+..=-..|++.|||||...|
T Consensus 348 ~~P~lP~~~vK~la~~~ak~s~~sK~kiskdal~aleqasdwfFeQl~dDL~aYA~HAgRKTIdesD 414 (414)
T PF15511_consen 348 PYPSLPPGVVKKLAQHFAKSSGGSKMKISKDALEALEQASDWFFEQLGDDLEAYAKHAGRKTIDESD 414 (414)
T ss_dssp ----S-HHHHHHHHHHHH-------S-B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHH
T ss_pred CCCCCCccHHHHHHHHHHHhhcccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4567999999999884322 34799999999999999999999999999999999999999876
No 36
>cd08050 TAF6 TATA Binding Protein (TBP) Associated Factor 6 (TAF6) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 6 (TAF6) is one of several TAFs that bind TBP and are involved in forming Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs functions such as serving as
Probab=97.99 E-value=2.9e-05 Score=60.16 Aligned_cols=64 Identities=23% Similarity=0.327 Sum_probs=57.1
Q ss_pred CHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcC
Q 047870 24 PLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIAT 89 (102)
Q Consensus 24 P~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~ 89 (102)
|...|+-|.+.. ++.+++.||...++..+|.++..++++|...+++.+|||++.+||..|++..
T Consensus 1 ~~~~i~~ia~~~--Gi~~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di~~Al~~~ 64 (343)
T cd08050 1 PQESIKLIAESL--GIDSLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHALRLR 64 (343)
T ss_pred ChhHHHHHHHHc--CCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHHh
Confidence 456788888833 3468999999999999999999999999999999999999999999999753
No 37
>PF04719 TAFII28: hTAFII28-like protein conserved region; InterPro: IPR006809 The general transcription factor, TFIID, consists of the TATA-binding protein (TBP) associated with a series of TBP-associated factors (TAFs) that together participate in the assembly of the transcription preinitiation complex. The conserved region is found at the C terminus of most member proteins. The crystal structure of hTAFII28 with hTAFII18 shows that this region is involved in the binding of these two subunits. The conserved region contains four alpha helices and three loops arranged as in histone H3 [, ].; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005634 nucleus; PDB: 1BH9_B 1BH8_B.
Probab=97.98 E-value=2.7e-05 Score=50.09 Aligned_cols=68 Identities=18% Similarity=0.193 Sum_probs=49.2
Q ss_pred CCCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCC-CCeecHHHHHHHHhc
Q 047870 20 THSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGK-RRTLLKDDVASAVIA 88 (102)
Q Consensus 20 ~~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~-rktI~~~di~~av~~ 88 (102)
...||.+.|||||+ .--+...++.....+++-.+.+|+.+|.++|.++..+.+ -.-|+|.|+..|..+
T Consensus 21 Rs~~~k~~ikkli~-~~~~~qsv~~~v~i~v~g~aKvFVGEiVE~A~~Vq~~~~~~~pl~P~hlreA~rr 89 (90)
T PF04719_consen 21 RSSFNKAAIKKLIN-QVLGNQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGETGPLQPDHLREAYRR 89 (90)
T ss_dssp H----HHHHHHHHH-HHHS-S---HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--SS--HHHHHHHHHH
T ss_pred HccCCHHHHHHHHH-HHcCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHHh
Confidence 34699999999999 433446899999999999999999999999999888655 348999999998754
No 38
>PF03847 TFIID_20kDa: Transcription initiation factor TFIID subunit A; InterPro: IPR003228 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription [].; GO: 0006352 transcription initiation, DNA-dependent, 0005669 transcription factor TFIID complex; PDB: 1H3O_B.
Probab=97.98 E-value=6.1e-05 Score=46.05 Aligned_cols=62 Identities=11% Similarity=0.236 Sum_probs=51.1
Q ss_pred HHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhc
Q 047870 26 ARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIA 88 (102)
Q Consensus 26 srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~ 88 (102)
.++..++++.||. ..+..++-.++...++.||..++..|...|++.|..||..+||.-.+++
T Consensus 3 ~~l~~Lv~~iDp~-~~ld~~vee~Ll~laddFv~~v~~~ac~lAKhR~s~tle~~Dv~~~Ler 64 (68)
T PF03847_consen 3 RKLQELVKQIDPN-EKLDPDVEELLLELADDFVDDVVSFACRLAKHRKSSTLEVKDVQLHLER 64 (68)
T ss_dssp HHHHHHHHCC-SS-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHHHH
T ss_pred HHHHHHHHHcCCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHHHHHHHh
Confidence 5788899977876 6799999999999999999999999999999999999999999988875
No 39
>PF09415 CENP-X: CENP-S associating Centromere protein X; InterPro: IPR018552 Centromere protein X (CENP-X) is a component of the CENP-S complex. The CENP-S complex is composed of at least of CENP-S and CENP-X and is essential for the stable assembly of the outer kinetchore []. CENP-X is also a DNA-binding component of the Fanconi anemia (FA) core complex involved in DNA damage repair and genome maintenance. The FA complex is composed of CENPS, FANCA, FANCB, FANCC, FANCE, FANCF, FANCG, FANCL/PHF9, FANCM, FAAP24 and CENPX. Interacts with CENPS, FANCM and FAAP24 [, ].; PDB: 4DRB_L 4DRA_H 3V9R_D.
Probab=97.92 E-value=7.1e-05 Score=46.23 Aligned_cols=64 Identities=17% Similarity=0.213 Sum_probs=51.7
Q ss_pred CHHHHHHHhhhc-CCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCe-ecHHHHHHHHh
Q 047870 24 PLARIKKIMKKS-GDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRT-LLKDDVASAVI 87 (102)
Q Consensus 24 P~srVkrImK~~-d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rkt-I~~~di~~av~ 87 (102)
|..-|.||++.. ..+..+||++|..++++-.+.|+.+-+.+|.+.++..+... |..+|+.+.+-
T Consensus 1 p~~li~rll~~~f~~~~tkIs~dal~l~~eyl~iFV~EAv~Ra~~~a~~e~~~~~le~e~LEki~p 66 (72)
T PF09415_consen 1 PPELIARLLHEHFKDDKTKISKDALKLSAEYLRIFVREAVARAAEQAEAEGDEGFLEVEHLEKILP 66 (72)
T ss_dssp -CHHHHHHHCTTSSSTT-EE-CCCHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSEE-HHHHHHHCH
T ss_pred ChHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCHHHHHHHHH
Confidence 677899999932 23557999999999999999999999999999999999988 99999998653
No 40
>PLN00161 histone H3; Provisional
Probab=97.80 E-value=9.1e-05 Score=50.80 Aligned_cols=66 Identities=24% Similarity=0.303 Sum_probs=52.3
Q ss_pred CCCHHHH-HHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHh
Q 047870 22 SLPLARI-KKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVI 87 (102)
Q Consensus 22 ~lP~srV-krImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~ 87 (102)
.+|-+|+ +.|+++..++.-++..+|..+|..|+|.|+-.+-+.|+-+|.+.+|-||.++||.-+..
T Consensus 58 klPF~RLVREI~~~~~~~~~Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHAkRVTlm~kDm~La~r 124 (135)
T PLN00161 58 KLPFARLVREISNEMLREPFRWTAEALLALQEATEDFLVHLFEDCNLCAIHAKRVTIMPKDMQLARR 124 (135)
T ss_pred cccHHHHHHHHHHhcCCCCcEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchhhHHHHHH
Confidence 4444443 33444222334689999999999999999999999999999999999999999987753
No 41
>PLN00160 histone H3; Provisional
Probab=97.78 E-value=8.5e-05 Score=48.38 Aligned_cols=69 Identities=17% Similarity=0.231 Sum_probs=53.4
Q ss_pred CCCCCCCHHHHHHHhhhc----CCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHH
Q 047870 18 AGTHSLPLARIKKIMKKS----GDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAV 86 (102)
Q Consensus 18 ~~~~~lP~srVkrImK~~----d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av 86 (102)
..++.+|.....|++++. ..+.-++..+|..++..|+|.|+-.+-+.++.+|.+.||-||.++|+.-+.
T Consensus 17 st~lLI~k~pF~RLVREI~~~~~~~~~Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRVTl~~kD~~L~~ 89 (97)
T PLN00160 17 STDLLIRRLPFARLVREIQMEMSREAYRWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRVTIMPKDMQLAR 89 (97)
T ss_pred chhhhhccccHHHHHHHHHHHcCCCCcEeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcccccchhhHHHHH
Confidence 334444444444444322 233368999999999999999999999999999999999999999998664
No 42
>smart00427 H2B Histone H2B.
Probab=97.78 E-value=0.00016 Score=46.42 Aligned_cols=61 Identities=21% Similarity=0.249 Sum_probs=54.1
Q ss_pred HHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhc
Q 047870 27 RIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIA 88 (102)
Q Consensus 27 rVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~ 88 (102)
-|.|++|+..||. .||+.|--.+.--..-+.+.++.+|...+..++|+||+.++|..|+.-
T Consensus 6 Yi~kvLKqVhpd~-giS~kam~imnSfvnDiferIa~EAs~L~~~nkr~TltsreIqtAvrl 66 (89)
T smart00427 6 YIYKVLKQVHPDT-GISSKAMSIMNSFVNDIFERIAAEASKLARYNKKSTLSSREIQTAVRL 66 (89)
T ss_pred HHHHHHHHhCCCc-cccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHHH
Confidence 4789999889996 599999888887777778889999999999999999999999999864
No 43
>KOG1658 consensus DNA polymerase epsilon, subunit C [Replication, recombination and repair]
Probab=97.73 E-value=6.7e-05 Score=52.50 Aligned_cols=75 Identities=19% Similarity=0.182 Sum_probs=56.3
Q ss_pred CCCCCCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCchhhhh
Q 047870 17 RAGTHSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATDIFDFLL 96 (102)
Q Consensus 17 ~~~~~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~~~FL~ 96 (102)
......||++.+++|-| .+|..+.-+.+|....+.++|.|++.++.-+. ..-..+...-|.++++..+.+.|+.
T Consensus 6 ~e~~p~~p~ekvkkiak-~dPey~~te~~a~~etafatE~fvq~lv~~p~-----a~l~rLpL~rik~vvkl~pdl~l~~ 79 (162)
T KOG1658|consen 6 PECSPKLPMEKVKKIAK-NDPEYMDTEDDAFVETAFATEQFVQVLVHLPQ-----ASLSRLPLARIKQVVKLDPDLTLLN 79 (162)
T ss_pred hhhCccccHHHHHHhhc-CCchhhhcccchHHHHHHHHHHHHhhhhhhhh-----hhhhhccHHHHHhhccCCcchhhhh
Confidence 34467899999999999 99999989999999999999999999998222 2233344455556666555555555
Q ss_pred h
Q 047870 97 T 97 (102)
Q Consensus 97 d 97 (102)
|
T Consensus 80 d 80 (162)
T KOG1658|consen 80 D 80 (162)
T ss_pred h
Confidence 4
No 44
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C.
Probab=97.68 E-value=0.00021 Score=44.58 Aligned_cols=64 Identities=17% Similarity=0.138 Sum_probs=50.5
Q ss_pred HHHHhhhcC-CCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCc
Q 047870 28 IKKIMKKSG-DDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATDI 91 (102)
Q Consensus 28 VkrImK~~d-~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~ 91 (102)
|-+|.++.. +....+|++...+|+..+=.++..++..-...|++.||+||+.+||.-...+++.
T Consensus 11 v~ki~ee~~~~~~~~~s~~~i~al~ELv~~q~~~~a~DLe~FAkHA~R~tI~~dDV~Ll~Rrn~~ 75 (76)
T PF15630_consen 11 VGKIVEEEAKEKGVEVSPQFIAALTELVYKQLENLAKDLEAFAKHAGRSTINMDDVKLLARRNPS 75 (76)
T ss_dssp HHHHHHHCCCCTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHTTT-HH
T ss_pred HHHHHHHHHhccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHHHhhcCCC
Confidence 567777442 3446799999999999999999999999999999999999999999988887764
No 45
>PLN00121 histone H3; Provisional
Probab=97.63 E-value=0.00017 Score=49.64 Aligned_cols=67 Identities=15% Similarity=0.232 Sum_probs=53.1
Q ss_pred CCCCCCHHHHHHHhhhc----CCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHH
Q 047870 19 GTHSLPLARIKKIMKKS----GDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAV 86 (102)
Q Consensus 19 ~~~~lP~srVkrImK~~----d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av 86 (102)
.++.+|.....|++++. .++ -++..+|..+|..|+|.|+-.|-+.++.+|.+.+|-||.++||.-+.
T Consensus 59 t~lLI~k~pF~RLVREI~~~~~~~-~Rf~~~Al~ALQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~ 129 (136)
T PLN00121 59 TELLIRKLPFQRLVREIAQDFKTD-LRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAR 129 (136)
T ss_pred cccccccccHHHHHHHHHHHhCcc-ceeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcceecchhhHHHHH
Confidence 35555554444444422 333 58999999999999999999999999999999999999999997664
No 46
>PTZ00018 histone H3; Provisional
Probab=97.62 E-value=0.00016 Score=49.74 Aligned_cols=67 Identities=15% Similarity=0.232 Sum_probs=53.5
Q ss_pred CCCCCCHHHHHHHhhhc----CCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHH
Q 047870 19 GTHSLPLARIKKIMKKS----GDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAV 86 (102)
Q Consensus 19 ~~~~lP~srVkrImK~~----d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av 86 (102)
.++.+|.....|++++. .++ .++..+|+.+|..|+|.|+-.|-+.++.+|.+.+|-||.++||.-+.
T Consensus 59 t~lLI~k~pF~RLVREI~~~~~~~-~rf~~~al~aLQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~ 129 (136)
T PTZ00018 59 TELLIRKLPFQRLVREIAQDFKTD-LRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAR 129 (136)
T ss_pred chhccccccHHHHHHHHHHHcCCc-ceeeHHHHHHHHHHHHHHHHHHhhhhHHHHHhhcceecchhhHHHHH
Confidence 35555555444444422 334 48999999999999999999999999999999999999999997664
No 47
>PF02269 TFIID-18kDa: Transcription initiation factor IID, 18kD subunit; InterPro: IPR003195 This family includes the Spt3 yeast transcription factors and the 18 kDa subunit from human transcription initiation factor IID (TFIID-18). Determination of the crystal structure reveals an atypical histone fold [].; GO: 0006366 transcription from RNA polymerase II promoter; PDB: 1BH9_A 1BH8_A.
Probab=97.56 E-value=8.6e-05 Score=47.81 Aligned_cols=71 Identities=15% Similarity=0.148 Sum_probs=32.7
Q ss_pred HHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCC-chhhhhhhc
Q 047870 28 IKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATD-IFDFLLTLV 99 (102)
Q Consensus 28 VkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~-~~~FL~d~v 99 (102)
|+.+|- .-.|...-..|+..++-..+-.|+..++.+|...|...|+++|+.+|+.-++.+++ .+.-|.+++
T Consensus 7 I~~mMy-~fGD~~~P~~eTv~lvE~iv~~~i~~l~~~A~~~a~~rg~~~i~~eDl~F~lR~D~~Kl~Rl~~~L 78 (93)
T PF02269_consen 7 IRQMMY-GFGDVEEPLPETVDLVEDIVREYIIELCQEAMEVAQRRGSKKIKVEDLLFLLRKDPKKLARLRELL 78 (93)
T ss_dssp CHHHHH-CTTS-SS--HHHHHHHHHHHHHHHHHHHHHHHC---------------------------------
T ss_pred HHHHHH-HcCCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCcCcHHHHHHHHhcCHHHHHHHHHHH
Confidence 567788 66777889999999999999999999999999999999999999999999999877 355555443
No 48
>PLN00158 histone H2B; Provisional
Probab=97.49 E-value=0.00067 Score=45.42 Aligned_cols=63 Identities=19% Similarity=0.225 Sum_probs=54.8
Q ss_pred HHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhc
Q 047870 25 LARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIA 88 (102)
Q Consensus 25 ~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~ 88 (102)
-.-|.|++|+..||.+ ||..|.-++.--..-+.+.|+.+|...+..++|+||+.++|..|+.-
T Consensus 30 ~~YI~kVLKQVhPd~g-IS~kaM~ImnSfvnDiferIA~EAs~La~~nkr~TltsrEIqtAvrL 92 (116)
T PLN00158 30 KIYIYKVLKQVHPDTG-ISSKAMSIMNSFINDIFEKIATEAGKLARYNKKPTVTSREIQTAVRL 92 (116)
T ss_pred HHHHHHHHHHhCCCCC-ccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHHH
Confidence 3458999998899964 89999888887777777889999999999999999999999999864
No 49
>PTZ00463 histone H2B; Provisional
Probab=97.42 E-value=0.00089 Score=44.87 Aligned_cols=61 Identities=18% Similarity=0.193 Sum_probs=53.0
Q ss_pred HHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhc
Q 047870 27 RIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIA 88 (102)
Q Consensus 27 rVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~ 88 (102)
-|.|++|+..||.+ ||..|.-++.--..-..+.++.+|...+..++|.||+.++|..|+.-
T Consensus 33 YI~KVLKqVhPd~g-IS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~TltsrEIQtAvrL 93 (117)
T PTZ00463 33 YIFKVLKQVHPDTG-ISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLSSREIQTAIRL 93 (117)
T ss_pred HHHHHHHhhCCCCC-ccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHhh
Confidence 38899998899965 89998888877667677789999999999999999999999999864
No 50
>cd07978 TAF13 The TATA Binding Protein (TBP) Associated Factor 13 (TAF13) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 13 (TAF13) is one of several TAFs that bind TBP and is involved in forming the Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAFs orthologs and paralogs. Several hy
Probab=97.36 E-value=0.0014 Score=42.21 Aligned_cols=72 Identities=17% Similarity=0.152 Sum_probs=60.7
Q ss_pred HHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCC-chhhhhhhc
Q 047870 26 ARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATD-IFDFLLTLV 99 (102)
Q Consensus 26 srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~-~~~FL~d~v 99 (102)
.-|+.+|- .-.|+..-..|+..++-..+-.|+..|+.+|.+.|. .++..++.+|+.-++.+++ .+..|.+++
T Consensus 6 ~ei~~mmy-~~GD~~~P~~eTv~llE~iv~~~i~~l~~~a~~~A~-~r~~k~~~eD~~FliR~D~~Kl~Rl~~lL 78 (92)
T cd07978 6 KEIRQMMY-GFGDVQNPLPETVDLLEDIVVEYIIELCHKAAEVAQ-RRRGKVKVEDLIFLLRKDPKKLARLRELL 78 (92)
T ss_pred HHHHHHHH-HcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHHHhcCHHHHHHHHHHH
Confidence 44788888 767777889999999999999999999999999998 5555669999999999988 466666554
No 51
>KOG3467 consensus Histone H4 [Chromatin structure and dynamics]
Probab=97.26 E-value=0.0019 Score=41.48 Aligned_cols=65 Identities=25% Similarity=0.286 Sum_probs=56.9
Q ss_pred CHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCC
Q 047870 24 PLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATD 90 (102)
Q Consensus 24 P~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~ 90 (102)
..-.|+||.+ - ..+.+|+--...-+..+..+|++.....|...+.+.+||||+..||..++++..
T Consensus 31 tKpaIRRlAR-r-~GVkRi~G~~yeE~~~~~k~fl~n~i~~A~~yt~HAKRKTvT~~dvv~~LKR~G 95 (103)
T KOG3467|consen 31 TKPAIRRLAR-R-GGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQG 95 (103)
T ss_pred chHHHHHHHH-h-cCcchhchhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhceeeHHHHHHHHHHcC
Confidence 3446888888 3 356788888888899999999999999999999999999999999999998765
No 52
>KOG3219 consensus Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=97.19 E-value=0.00055 Score=49.53 Aligned_cols=69 Identities=19% Similarity=0.266 Sum_probs=59.1
Q ss_pred CCCCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCC-CCeecHHHHHHHHhcC
Q 047870 19 GTHSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGK-RRTLLKDDVASAVIAT 89 (102)
Q Consensus 19 ~~~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~-rktI~~~di~~av~~~ 89 (102)
....||.+.|||+|. .--. ..|+..+.++++-.+.+|+-+|+.+|.+++...+ ..-|+|.||..|....
T Consensus 109 Rrs~f~Ka~iKkL~~-~itg-~~v~~nv~Ia~~GiaKvFVGEvVEeAl~V~~~~~e~~PLqP~HIREA~rrL 178 (195)
T KOG3219|consen 109 RRSAFPKAQIKKLMS-SITG-QSVSENVAIAMAGIAKVFVGEVVEEALDVREEWGESGPLQPKHIREAYRRL 178 (195)
T ss_pred HHhcCCHHHHHHHHH-HHhC-CccCcceeeeecchhhHhHHHHHHHHHHHHHHhccCCCCCcHHHHHHHHHH
Confidence 367899999999999 5443 3499999999999999999999999999988644 5679999999998764
No 53
>PF15510 CENP-W: Centromere kinetochore component W
Probab=97.06 E-value=0.0021 Score=41.47 Aligned_cols=66 Identities=20% Similarity=0.330 Sum_probs=54.8
Q ss_pred CCCCHHHHHHHhhhcCCCcccccccHHHH--------------HHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHH
Q 047870 21 HSLPLARIKKIMKKSGDDVKMISGEAPIV--------------FSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAV 86 (102)
Q Consensus 21 ~~lP~srVkrImK~~d~~~~~is~eA~~~--------------l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av 86 (102)
-.-|.+-+||++|..-|. -++...+-.+ +-..+=+|++.|+++|-..|-+++..+|..+||..|-
T Consensus 15 rkaPrgfLkrv~Kr~Kph-lRl~~~~Dllv~~~~f~~~~~~~~vhLncLLFvhrLAEEaRtnA~EnK~~~Ik~~Hv~Aaa 93 (102)
T PF15510_consen 15 RKAPRGFLKRVFKRQKPH-LRLETSGDLLVRFCPFSGWQWGGEVHLNCLLFVHRLAEEARTNACENKCGTIKKEHVLAAA 93 (102)
T ss_pred HhCchHHHHHHHHhcCCc-eeecccccHHHhhcccccccccceeehhHHHHHHHHHHHHHHHHHHHhhccccHHHHHHHH
Confidence 356999999999954454 4666666666 6677889999999999999999999999999999875
Q ss_pred h
Q 047870 87 I 87 (102)
Q Consensus 87 ~ 87 (102)
+
T Consensus 94 K 94 (102)
T PF15510_consen 94 K 94 (102)
T ss_pred H
Confidence 4
No 54
>PF07524 Bromo_TP: Bromodomain associated; InterPro: IPR006565 This bromodomain is found in eukaryotic transcription factors and PHD domain containing proteins (IPR001965 from INTERPRO). The tandem PHD finger-bromodomain is found in many chromatin-associated proteins. It is involved in gene silencing by the human co-repressor KRAB-associated protein 1 (KAP1). The tandem PHD finger-bromodomain of KAP1 has a distinct structure that joins the two protein modules. The first helix, alpha(Z), of an atypical bromodomain forms the central hydrophobic core that anchors the other three helices of the bromodomain on one side and the zinc binding PHD finger on the other []. The Rap1 GTPase-activating protein, Sipa1, is modulated by the cellular bromodomain protein, Brd4. Brd4 belongs to the BET family and is a multifunctional protein involved in transcription, replication, the signal transduction pathway, and cell cycle progression. All of these functions are linked to its association with acetylated chromatin. It has tandem bromodomains []. The dysregulation of the Brd4-associated pathways may play an important role in breast cancer progression []. Bovine papillomavirus type 1 E2 also binds to chromosomes in a complex with Brd4. Interaction with Brd4 is additionally important for E2-mediated transcriptional regulation [, ].
Probab=96.96 E-value=0.006 Score=37.45 Aligned_cols=61 Identities=16% Similarity=0.181 Sum_probs=52.8
Q ss_pred HHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCC
Q 047870 28 IKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATD 90 (102)
Q Consensus 28 VkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~ 90 (102)
|-+|++ . -+...+++.|...++..+..|+..|+..+...|...+|....+.||..++++..
T Consensus 12 va~il~-~-~GF~~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt~~~~~Dv~~al~~~g 72 (77)
T PF07524_consen 12 VAQILK-H-AGFDSASPSALDTLTDILQRYLQELGRTAKRYAEHAGRTEPNLQDVEQALEEMG 72 (77)
T ss_pred HHHHHH-H-cCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhC
Confidence 455666 3 234579999999999999999999999999999999999999999999998754
No 55
>PLN00155 histone H2A; Provisional
Probab=96.86 E-value=0.0016 Score=38.70 Aligned_cols=36 Identities=25% Similarity=0.468 Sum_probs=32.0
Q ss_pred CCCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHH
Q 047870 20 THSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACEL 56 (102)
Q Consensus 20 ~~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~ 56 (102)
.++||++||.|.++ ...-..+|+..|++.++..+|+
T Consensus 22 gL~FPVgri~r~Lr-~g~~a~Rvga~apVYlAAVLEY 57 (58)
T PLN00155 22 GLQFPVGRIARYLK-KGKYAERIGAGAPVYLAAVLEY 57 (58)
T ss_pred ccccchHHHHHHHh-cCChhhcccCCcHHHHHHHHHh
Confidence 78999999999999 6555579999999999999886
No 56
>KOG1744 consensus Histone H2B [Chromatin structure and dynamics]
Probab=96.81 E-value=0.0062 Score=41.41 Aligned_cols=60 Identities=22% Similarity=0.272 Sum_probs=48.9
Q ss_pred HHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhc
Q 047870 28 IKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIA 88 (102)
Q Consensus 28 VkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~ 88 (102)
|.|++|+.+|+.+ |+.++.-++.--.-.+.+.++.+|...|...+|.||+-++|..++.-
T Consensus 43 v~kvlk~Vhpd~g-is~~a~~vmnsf~ndife~iA~ea~rla~y~krstisSreiqta~rL 102 (127)
T KOG1744|consen 43 VYKVLKQVHPDLG-ISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTISSREIQTAVRL 102 (127)
T ss_pred hhhhhhcccCCCC-cCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCcccHHHHHHHHHH
Confidence 3447887889965 77777777666556668999999999999999999999999998864
No 57
>KOG1142 consensus Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=96.71 E-value=0.0033 Score=47.28 Aligned_cols=76 Identities=9% Similarity=0.177 Sum_probs=65.9
Q ss_pred CCCCCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCchhh
Q 047870 18 AGTHSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATDIFDF 94 (102)
Q Consensus 18 ~~~~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~~~F 94 (102)
.+...+-..++..+++..|.+ ..+-.|+..+|...++-||..++..|...|++++..||..+||.-.++++=.+.|
T Consensus 150 ~~~~il~k~kl~dLvqqId~~-~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtlEvrDIqLhLEr~~Nm~i 225 (258)
T KOG1142|consen 150 GNNPILSKRKLDDLVQQIDGT-TKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTVEVRDIQLHLERNFNMEI 225 (258)
T ss_pred CCCccccccchhHHHHhhcCc-ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccchhheeeeeeccccccC
Confidence 345567778899999977766 7899999999999999999999999999999999999999999999987654443
No 58
>KOG1745 consensus Histones H3 and H4 [Chromatin structure and dynamics]
Probab=96.60 E-value=0.0026 Score=43.80 Aligned_cols=65 Identities=20% Similarity=0.265 Sum_probs=55.9
Q ss_pred CCCHHHHHH-HhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHh
Q 047870 22 SLPLARIKK-IMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVI 87 (102)
Q Consensus 22 ~lP~srVkr-ImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~ 87 (102)
.+|-.|.-| |.+ ......++.+.|..++..|.|.|+-.|-+.++-+|-+.+|-||.++||.-|..
T Consensus 66 K~PFqRlvrei~q-~f~~dLrfqs~Ai~ALQeA~EayLv~LfEdtnlcAihAkRVTimpkdiQlArr 131 (137)
T KOG1745|consen 66 KLPFQRLVREIAQ-DFKTDLRFQSSAIAALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARR 131 (137)
T ss_pred cCcHHHHhHHHHh-cccccceehHHHHHHHHHHHHHHHHHhccccchhhhccceeEecccceehhhh
Confidence 567777666 777 44444689999999999999999999999999999999999999999987754
No 59
>KOG2549 consensus Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=95.32 E-value=0.081 Score=43.78 Aligned_cols=63 Identities=24% Similarity=0.363 Sum_probs=56.4
Q ss_pred CHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhc
Q 047870 24 PLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIA 88 (102)
Q Consensus 24 P~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~ 88 (102)
|..-+|-+.+ +- .+.+++.|+..+|+.-.|+=+.++++.|.++..+.+|.+++.+||..|+..
T Consensus 13 ~~Es~k~vAE-sl-Gi~nl~deaa~~La~dv~yrikEI~Q~aaKfm~hskR~kLtv~DV~~ALr~ 75 (576)
T KOG2549|consen 13 PKESVKVVAE-SL-GITNLNDEAALLLAEDVEYRIKEIVQDAAKFMVHSKRTKLTVDDVDYALRS 75 (576)
T ss_pred cHHHHHHHHH-Hh-CccccCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcCcHHHHHHHHhh
Confidence 3777888887 53 347899999999999999999999999999999999999999999999974
No 60
>KOG3423 consensus Transcription initiation factor TFIID, subunit TAF10 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=95.19 E-value=0.19 Score=35.78 Aligned_cols=69 Identities=17% Similarity=0.247 Sum_probs=52.4
Q ss_pred CCCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhh--------------CCCCeecHHHHHHH
Q 047870 20 THSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQ--------------GKRRTLLKDDVASA 85 (102)
Q Consensus 20 ~~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~--------------~~rktI~~~di~~a 85 (102)
...+|=+-+--.|+ .. .+...-.-...+++.|++-||.+++..|++.++- +++-|++.+|+..|
T Consensus 84 tP~IPDavt~~yL~-~a-Gf~~~D~rv~RLvsLaAQKfvSDIa~DA~Q~~k~r~~~~~~~~k~~~kdkK~tLtmeDL~~A 161 (176)
T KOG3423|consen 84 TPTIPDAVTDHYLK-KA-GFQTSDPRVKRLVSLAAQKFVSDIANDALQHSKIRTKTAIGKDKKQAKDKKYTLTMEDLSPA 161 (176)
T ss_pred CCCCcHHHHHHHHH-hc-CCCcCcHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccccccccccccceeeeHHHHHHH
Confidence 34567777777776 32 2233444567899999999999999999999884 34679999999999
Q ss_pred HhcCC
Q 047870 86 VIATD 90 (102)
Q Consensus 86 v~~~~ 90 (102)
+.+.+
T Consensus 162 L~EyG 166 (176)
T KOG3423|consen 162 LAEYG 166 (176)
T ss_pred HHHhC
Confidence 98754
No 61
>PF02291 TFIID-31kDa: Transcription initiation factor IID, 31kD subunit; InterPro: IPR003162 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription []. TAFII-31 protein is a transcriptional coactivator of the p53 protein [].; GO: 0006352 transcription initiation, DNA-dependent; PDB: 1TAF_A.
Probab=94.80 E-value=0.22 Score=33.88 Aligned_cols=67 Identities=18% Similarity=0.110 Sum_probs=40.8
Q ss_pred HHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCchhh
Q 047870 26 ARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATDIFDF 94 (102)
Q Consensus 26 srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~~~F 94 (102)
--|..|+| +- ++.......+..+-.-+-.++..++..|...|.+.+|++|..+||.-||+..-.+.|
T Consensus 16 ~~i~~iL~-~~-Gv~~yeprVv~qLLEfayRYt~~vL~DA~~ya~hA~~~~i~~~DVrLAi~~r~~~~f 82 (129)
T PF02291_consen 16 RVIHLILK-SM-GVTEYEPRVVNQLLEFAYRYTSDVLEDAQVYADHAGRSTIDADDVRLAIQSRLDHSF 82 (129)
T ss_dssp HHHHHHHH-HT-T---B-THHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHHHHT-----
T ss_pred HHHHHHHH-Hc-CCcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHhhhc
Confidence 35677777 32 222333334433333444678888899999999999999999999999995443433
No 62
>PF05236 TAF4: Transcription initiation factor TFIID component TAF4 family; InterPro: IPR007900 Accurate transcription initiation at protein-coding genes by RNA polymerase II requires the assembly of a multiprotein complex around the mRNA start site. Transcription factor TFIID is one of the general factors involved in this process. Yeast TFIID comprises the TATA binding protein and 14 TBP-associated factors (TAFIIs), nine of which contain histone-fold domains (IPR007124 from INTERPRO). The C-terminal region of the TFIID-specific yeast TAF4 (yTAF4) containing the HFD shares strong sequence similarity with Drosophila (d)TAF4 and human TAF4. A structure/function analysis of yTAF4 demonstrates that the HFD, a short conserved C-terminal domain (CCTD), and the region separating them are all required for yTAF4 function. This region of similarity is found in Transcription initiation factor TFIID component TAF4 []. ; GO: 0006352 transcription initiation, DNA-dependent, 0005669 transcription factor TFIID complex; PDB: 1H3O_C.
Probab=92.62 E-value=0.31 Score=36.37 Aligned_cols=45 Identities=22% Similarity=0.293 Sum_probs=30.4
Q ss_pred HHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 047870 26 ARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQG 72 (102)
Q Consensus 26 srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~ 72 (102)
.+|.+|++ ... +..+..|...+|+.|||..+..|+..+...|++.
T Consensus 51 ~~i~~i~~-~~g-~~~~~~d~l~llS~A~e~rLr~lie~~~~~s~hR 95 (264)
T PF05236_consen 51 KRIQKIAK-KHG-LKSVDEDVLELLSLATEERLRNLIEKAIVLSRHR 95 (264)
T ss_dssp HHHHHHHH-CTT---EE-TCHHHHHHHHHHHHHHHHHHHHH------
T ss_pred HHHHHHHH-HcC-CcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 35666666 333 5689999999999999999999999999998763
No 63
>PF03540 TFIID_30kDa: Transcription initiation factor TFIID 23-30kDa subunit; InterPro: IPR003923 Transcription initiation factor TFIID is a multimeric protein complex that plays a central role in mediating promoter responses to various activators and repressors. The complex includes TATA binding protein (TBP) and various TBP-associated factors (TAFS). TFIID a bona fide RNA polymerase II-specific TATA-binding protein-associated factor (TAF) and is essential for viability []. TFIID acts to nucleate the transcription complex, recruiting the rest of the factors through a direct interaction with TFIIB. The TBP subunit of TFIID is sufficient for TATA-element binding and TFIIB interaction, and can support basal transcription. The protein belongs to the TAF2H family.; GO: 0006352 transcription initiation, DNA-dependent, 0005634 nucleus
Probab=92.46 E-value=1.1 Score=25.87 Aligned_cols=48 Identities=15% Similarity=0.196 Sum_probs=36.8
Q ss_pred CCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 047870 22 SLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQ 71 (102)
Q Consensus 22 ~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~ 71 (102)
.+|=+-+.-+|+.++- ..--.-..-+++.|++.|+.+++..|++.++-
T Consensus 2 ~IPD~v~~~yL~~~G~--~~~D~rv~RLvSLaaQKFisdI~~dA~q~~k~ 49 (51)
T PF03540_consen 2 TIPDEVTDYYLERSGF--QTSDPRVKRLVSLAAQKFISDIANDAMQYCKI 49 (51)
T ss_pred CCCHHHHHHHHHHCCC--CCCCHhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4677778888884432 23344567899999999999999999999874
No 64
>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=92.16 E-value=0.49 Score=37.27 Aligned_cols=63 Identities=21% Similarity=0.264 Sum_probs=55.0
Q ss_pred CHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhc
Q 047870 24 PLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIA 88 (102)
Q Consensus 24 P~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~ 88 (102)
....||-... +. .+.+|..|+..+++.-+|+=|.+++++|.....+.+|..++-+||..|+..
T Consensus 7 s~et~KdvAe-sl-Gi~Ni~Dd~l~alamDlEYRI~ev~qea~KFmvhSKRtvLt~dDis~ALr~ 69 (450)
T COG5095 7 SKETLKDVAE-SL-GISNIDDDALRALAMDLEYRIKEVCQEASKFMVHSKRTVLTIDDISYALRS 69 (450)
T ss_pred cHHHHHHHHH-Hc-CCcccccHHHHHHHHhHHHHHHHHHHHHHHHhhcccceeeeHHhHHHHHHh
Confidence 3456666666 42 457899999999999999999999999999999999999999999999975
No 65
>cd08045 TAF4 TATA Binding Protein (TBP) Associated Factor 4 (TAF4) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 4 (TAF4) is one of several TAFs that bind TBP and are involved in forming the Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryote. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAF orthologs and paralogs. Several hypotheses are
Probab=91.29 E-value=0.87 Score=32.98 Aligned_cols=67 Identities=19% Similarity=0.187 Sum_probs=48.4
Q ss_pred CCCCCHHHH----HHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhC------CCCeecHHHHHHHHhc
Q 047870 20 THSLPLARI----KKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQG------KRRTLLKDDVASAVIA 88 (102)
Q Consensus 20 ~~~lP~srV----krImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~------~rktI~~~di~~av~~ 88 (102)
..-|....+ .+|++.. .+..++.+...+|+.|||.++..|.......|++. ..++....|+..-+..
T Consensus 42 ~~fl~~~~l~~~~~~i~~~~--g~~~~~~d~~~lis~a~e~rlr~li~k~~~~s~hR~~~~~~~~r~~~~sdvr~qL~~ 118 (212)
T cd08045 42 PSFLNPSPLAKKIRKIAKKH--GLKEVDEDVLDLISLALEERLRNLLEKLIEVSEHRVDSEKEDERYEITSDVRKQLRF 118 (212)
T ss_pred hhccCHHHHHHHHHHHHHHc--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCceeecchHHHHHHH
Confidence 345555544 4455522 22378999999999999999999999999998864 3466667777766543
No 66
>PF13335 Mg_chelatase_2: Magnesium chelatase, subunit ChlI
Probab=90.89 E-value=1.9 Score=27.61 Aligned_cols=60 Identities=18% Similarity=0.284 Sum_probs=50.6
Q ss_pred CCCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHH------HHHHHHHHHHHHhhCCCCeecHHHHHHHHh
Q 047870 20 THSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELF------IEELTKRSWTMTMQGKRRTLLKDDVASAVI 87 (102)
Q Consensus 20 ~~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~F------i~~l~~~A~~~a~~~~rktI~~~di~~av~ 87 (102)
+..+|-.-|.+... +++++..++..+++-+ ...+++-|.-+|--++...|..+||..|+.
T Consensus 29 Na~l~~~~l~~~~~--------l~~~~~~~l~~~~~~~~lS~R~~~rilrvARTIADL~~~~~I~~~hi~EAl~ 94 (96)
T PF13335_consen 29 NAQLPGEELRKYCP--------LSSEAKKLLEQAAEKLNLSARGYHRILRVARTIADLEGSERITREHIAEALS 94 (96)
T ss_pred cccCCHHHHHhHcC--------CCHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHhHcCCCCCCHHHHHHHHh
Confidence 55777777777665 6677888888888877 778899999999999999999999999974
No 67
>KOG2389 consensus Predicted bromodomain transcription factor [Transcription]
Probab=87.19 E-value=3.1 Score=32.78 Aligned_cols=66 Identities=14% Similarity=0.101 Sum_probs=55.8
Q ss_pred CCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCC
Q 047870 23 LPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATD 90 (102)
Q Consensus 23 lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~ 90 (102)
+-..+|.+|++ +.+- ...-..|...|+-.+..||+.|.+-|...+.-.||---...||..|++...
T Consensus 30 la~~avaQIcq-slg~-~~~~~sale~Ltd~~~qyvQ~lgk~a~~~~n~anR~epnl~Div~Al~dls 95 (353)
T KOG2389|consen 30 LARVAVAQICQ-SLGY-SSTQNSALETLTDVLQQYVQNLGKTAHRYSNLANRTEPNLFDIVLALQDLS 95 (353)
T ss_pred HHHHHHHHHHH-hcCC-cccccHHHHHHHHHHHHHHHHHHhhhhhhhhhcCCCCccHHHHHHHHHHhh
Confidence 44567889999 6543 345556999999999999999999999999999999999999999998643
No 68
>COG5248 TAF19 Transcription initiation factor TFIID, subunit TAF13 [Transcription]
Probab=86.17 E-value=3.5 Score=27.59 Aligned_cols=70 Identities=16% Similarity=0.102 Sum_probs=50.9
Q ss_pred HHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCc-hhhhhhh
Q 047870 26 ARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATDI-FDFLLTL 98 (102)
Q Consensus 26 srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~-~~FL~d~ 98 (102)
--|+-+|= +-.|+..=..++..++-.-.--++..++..|+..|+ .|..+..+|+.-|+..++. +.-.+++
T Consensus 13 KDikslmY-ayGDvv~P~~dt~~~L~e~V~dY~~~~ctna~~~Aq--~rnK~k~eDfkfaLr~DpkKlgRveeL 83 (126)
T COG5248 13 KDIKSLMY-AYGDVVAPRYDTAEALHEYVLDYMSILCTNAHNMAQ--VRNKTKTEDFKFALRRDPKKLGRVEEL 83 (126)
T ss_pred HHHHHHHH-HhCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHH--hcccchHHHHHHHHhhChHHHhHHHHH
Confidence 34556666 555656666777777777777788888889999987 5667788999999998873 5444443
No 69
>KOG3901 consensus Transcription initiation factor IID subunit [Transcription]
Probab=84.53 E-value=8.2 Score=25.55 Aligned_cols=60 Identities=17% Similarity=0.101 Sum_probs=45.8
Q ss_pred CCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCC-chhhhhhhc
Q 047870 37 DDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATD-IFDFLLTLV 99 (102)
Q Consensus 37 ~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~-~~~FL~d~v 99 (102)
.|...=-.+++.++-...-.||..++..|..+. +|-.+..+|+.-+|..++ .|.-.+|++
T Consensus 23 GDd~nP~~~tv~~Le~iV~~Yi~elt~~a~~~g---~rgk~~veD~~f~lRkDpkK~~Rv~eLL 83 (109)
T KOG3901|consen 23 GDDVNPYPETVDLLEDIVLEYITELTHAAMEIG---KRGKVKVEDFKFLLRKDPKKLGRVKELL 83 (109)
T ss_pred CCCCCccHhHHHHHHHHHHHHHHHHHHHHHHhc---ccCceeHHHHHHHHHhChHHHhHHHHHH
Confidence 344555677888888888888888888777765 778899999999999988 466666554
No 70
>KOG3334 consensus Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=83.06 E-value=2.1 Score=29.80 Aligned_cols=54 Identities=19% Similarity=0.199 Sum_probs=41.3
Q ss_pred ccccHHHHHHHHHH---HHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCchhhh
Q 047870 42 ISGEAPIVFSKACE---LFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATDIFDFL 95 (102)
Q Consensus 42 is~eA~~~l~ka~E---~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~~~FL 95 (102)
|..=-+.++...+| .++..+++.|.-.+.+.++.+|..+||..|++....+.|-
T Consensus 28 I~eyEprVi~qlLefa~rYtt~vL~DA~vys~HA~ka~i~~eDVrlA~~~~~~~sf~ 84 (148)
T KOG3334|consen 28 IQEYEPRVINQLLEFAYRYTTTVLDDAKVYSSHAKKATIDAEDVRLAIQMRVDHSFT 84 (148)
T ss_pred ccccChHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHhccccC
Confidence 33333555555555 4577888899999999999999999999999977666664
No 71
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=81.62 E-value=2.8 Score=30.26 Aligned_cols=69 Identities=16% Similarity=0.236 Sum_probs=51.9
Q ss_pred CCCHHHHHHHhhh----cCC-CcccccccHHHHHHHHHH---HHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCC
Q 047870 22 SLPLARIKKIMKK----SGD-DVKMISGEAPIVFSKACE---LFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATD 90 (102)
Q Consensus 22 ~lP~srVkrImK~----~d~-~~~~is~eA~~~l~ka~E---~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~ 90 (102)
.|...-++.++.. ... ....++.++...+.+.+. ..++.++..++..|..++.++|+.+||..++....
T Consensus 191 ~l~~~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~~~~a~~~~~~~i~~~~v~~~~~~~~ 267 (269)
T TIGR03015 191 PLDREETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRLLLSAFLEEKREIGGEEVREVIAEID 267 (269)
T ss_pred CCCHHHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhh
Confidence 4455555555541 111 123588999999988877 47999999999999999999999999999998754
No 72
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=81.36 E-value=10 Score=29.07 Aligned_cols=66 Identities=15% Similarity=0.180 Sum_probs=47.9
Q ss_pred CHHHHHHHhhhcCCC---cccccccHHHHHHHHHH------HHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcC
Q 047870 24 PLARIKKIMKKSGDD---VKMISGEAPIVFSKACE------LFIEELTKRSWTMTMQGKRRTLLKDDVASAVIAT 89 (102)
Q Consensus 24 P~srVkrImK~~d~~---~~~is~eA~~~l~ka~E------~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~ 89 (102)
...-+..|++.-... ...++.++...+++.+. ..+..++..|...|...++.+|+.+||..|+...
T Consensus 208 ~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~~~~I~~~~v~~a~~~~ 282 (394)
T PRK00411 208 TADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREGSRKVTEEDVRKAYEKS 282 (394)
T ss_pred CHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHH
Confidence 356667776622111 13578888888877663 3455778889889999999999999999999875
No 73
>TIGR00764 lon_rel lon-related putative ATP-dependent protease. Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.
Probab=80.07 E-value=11 Score=31.58 Aligned_cols=61 Identities=8% Similarity=0.036 Sum_probs=44.5
Q ss_pred HHHHHhhhcCCCcccccccHHHHHHHHH-------------HHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhc
Q 047870 27 RIKKIMKKSGDDVKMISGEAPIVFSKAC-------------ELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIA 88 (102)
Q Consensus 27 rVkrImK~~d~~~~~is~eA~~~l~ka~-------------E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~ 88 (102)
.|.+.++ .+.....++.+|...+.+-+ ..=+..|+.+|..+|..+++.+|+.+||.+|++.
T Consensus 317 ~i~~~~~-r~G~l~~~s~~Av~~Li~~~~R~ag~r~~lsl~~R~L~~llR~A~~iA~~~~~~~I~~ehV~~Ai~~ 390 (608)
T TIGR00764 317 FVAQEVK-KDGRIPHFTRDAVEEIVREAQRRAGRKDHLTLRLRELGGLVRAAGDIAKSSGKVYVTAEHVLKAKKL 390 (608)
T ss_pred HHHHHHH-HhCCCCcCCHHHHHHHHHHHHHHHhcccccCCCHHHHHHHHHHHHHHHHhcCCceecHHHHHHHHHH
Confidence 4444555 33234478888888776432 2447788889988999999999999999999874
No 74
>COG5162 Transcription initiation factor TFIID, subunit TAF10 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=78.97 E-value=6.5 Score=28.16 Aligned_cols=47 Identities=13% Similarity=0.189 Sum_probs=37.2
Q ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHhh---------------------------------CCCCeecHHHHHHHHhcCC
Q 047870 44 GEAPIVFSKACELFIEELTKRSWTMTMQ---------------------------------GKRRTLLKDDVASAVIATD 90 (102)
Q Consensus 44 ~eA~~~l~ka~E~Fi~~l~~~A~~~a~~---------------------------------~~rktI~~~di~~av~~~~ 90 (102)
.-..-+++.+++-|+.+++..|++..+= .++-+++..|+..|+.+.+
T Consensus 108 ~rvKkLl~L~aqKFvsDiA~dayqYsrIr~~~sna~~t~~~a~~f~~gg~~~i~~~~~~~dr~K~vltv~DLs~Al~EyG 187 (197)
T COG5162 108 QRVKKLLSLLAQKFVSDIAVDAYQYSRIRQGSSNAKATAQKAKRFAKGGASGIGSSGRRGDRKKPVLTVVDLSKALEEYG 187 (197)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccchhhHHHHHHHHhcccccccccccccccCCceeeehHHHHHHHHhc
Confidence 3456688999999999999999986541 1567889999999998654
No 75
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=77.05 E-value=7.5 Score=31.38 Aligned_cols=65 Identities=14% Similarity=0.178 Sum_probs=49.9
Q ss_pred CCCHHHHHHHhhh-cCCCcccccccHHHHHHHHHH----HHHHHHHHHHHHHHhhCCCCeecHHHHHHHH
Q 047870 22 SLPLARIKKIMKK-SGDDVKMISGEAPIVFSKACE----LFIEELTKRSWTMTMQGKRRTLLKDDVASAV 86 (102)
Q Consensus 22 ~lP~srVkrImK~-~d~~~~~is~eA~~~l~ka~E----~Fi~~l~~~A~~~a~~~~rktI~~~di~~av 86 (102)
.++..-|+.|++- +..+...++.+|...++.--+ .+.-.|..-|...|+..|+++|..+||..|-
T Consensus 360 py~~~EireIi~iRa~ee~i~l~~~Ale~L~~ig~etSLRYa~qLL~pa~iiA~~rg~~~V~~~dVe~a~ 429 (450)
T COG1224 360 PYSREEIREIIRIRAKEEDIELSDDALEYLTDIGEETSLRYAVQLLTPASIIAKRRGSKRVEVEDVERAK 429 (450)
T ss_pred CCCHHHHHHHHHHhhhhhccccCHHHHHHHHhhchhhhHHHHHHhccHHHHHHHHhCCCeeehhHHHHHH
Confidence 4556677888761 244556789999999987544 4566677789999999999999999998874
No 76
>PF12767 SAGA-Tad1: Transcriptional regulator of RNA polII, SAGA, subunit; InterPro: IPR024738 The yeast Spt-Ada-Gcn5-Acetyl (SAGA) transferase complex is a multifunctional coactivator involved in multiple cellular processes [], including regulation of transcription by RNA polymerase II [, ]. It is formed of five major modular subunits and shows a high degree of structural conservation to human TFTC and STAGA []. This entry represents Ada1 (known as Tada1 in higher eukaryotes), one of the subunits that constitute the SAGA core. It also functions as a component of the SALSA and SLIK complexes. ; GO: 0070461 SAGA-type complex
Probab=76.17 E-value=7 Score=28.92 Aligned_cols=43 Identities=16% Similarity=0.261 Sum_probs=33.0
Q ss_pred HHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHH
Q 047870 25 LARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMT 69 (102)
Q Consensus 25 ~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a 69 (102)
..|+..|.. . .+...++.|++.+|..|+|.|+..|...+.+.+
T Consensus 209 ~~Rm~~ia~-e-~GL~gvs~~~a~ll~~ale~~LK~lI~s~l~~~ 251 (252)
T PF12767_consen 209 RKRMEQIAW-E-HGLGGVSDDCANLLNLALEVHLKNLIKSCLDLV 251 (252)
T ss_pred HHHHHHHHH-H-cCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 345555655 2 123479999999999999999999999887653
No 77
>KOG4336 consensus TBP-associated transcription factor Prodos [Transcription]
Probab=76.11 E-value=12 Score=29.16 Aligned_cols=53 Identities=17% Similarity=0.174 Sum_probs=47.5
Q ss_pred CCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhc
Q 047870 36 GDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIA 88 (102)
Q Consensus 36 d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~ 88 (102)
......+++-|..-+..++.-.|..+...+...|...||...++.||.-.+.+
T Consensus 17 ~~gfd~is~~aletlvell~~yi~eigrq~~n~celagRT~pT~~Dv~l~Li~ 69 (323)
T KOG4336|consen 17 TKGFDSISNAALETLVELLQSYIREIGRQLHNYCELAGRTIPTQGDVKLTLIE 69 (323)
T ss_pred HhCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHHHHHHH
Confidence 34455799999999999999999999999999999999999999999988764
No 78
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=75.81 E-value=16 Score=27.62 Aligned_cols=66 Identities=8% Similarity=0.078 Sum_probs=45.2
Q ss_pred HHHHHHHhhhcCC---CcccccccHHHHHHHHHH------HHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCC
Q 047870 25 LARIKKIMKKSGD---DVKMISGEAPIVFSKACE------LFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATD 90 (102)
Q Consensus 25 ~srVkrImK~~d~---~~~~is~eA~~~l~ka~E------~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~ 90 (102)
..-+..|++.-.. ....++.++..+++..+. ..+..++..|...|...++.+|+.+||..|+....
T Consensus 201 ~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~~~a~~~~~~~it~~~v~~a~~~~~ 275 (365)
T TIGR02928 201 AEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLRVAGEIAEREGAERVTEDHVEKAQEKIE 275 (365)
T ss_pred HHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 3446666652111 113477787777665443 35667888888889888999999999999987654
No 79
>PF13654 AAA_32: AAA domain; PDB: 3K1J_B.
Probab=75.70 E-value=4.3 Score=33.40 Aligned_cols=50 Identities=8% Similarity=0.090 Sum_probs=34.8
Q ss_pred ccccccHHHHHHHHHH-----------HHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcC
Q 047870 40 KMISGEAPIVFSKACE-----------LFIEELTKRSWTMTMQGKRRTLLKDDVASAVIAT 89 (102)
Q Consensus 40 ~~is~eA~~~l~ka~E-----------~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~ 89 (102)
..++.+|...|-+... .-+..|+.+|..+|+..+.+.|+.+||.+|++.-
T Consensus 446 ~~~~~~Av~~li~~~~R~~q~kLsl~~~~l~~ll~EA~~~A~~~~~~~I~~~~V~~Ai~~r 506 (509)
T PF13654_consen 446 PPFDRSAVARLIEYSARLDQDKLSLRFSWLADLLREANYWARKEGAKVITAEHVEQAIEER 506 (509)
T ss_dssp --BBHHHHHHHHHHHHHCC-SEEE--HHHHHHHHHHHHHHHHHCT-SSB-HHHHHHHHHH-
T ss_pred CCCCHHHHHHHHHHHHHHhCCEeCCCHHHHHHHHHHHHHHHHHhCCCccCHHHHHHHHHcc
Confidence 4556665555544332 2467889999999999999999999999999864
No 80
>COG1067 LonB Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]
Probab=73.33 E-value=19 Score=30.66 Aligned_cols=62 Identities=11% Similarity=0.158 Sum_probs=44.9
Q ss_pred CCCcccccccHHHHHHHHHHHH-------------HHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCC-chhhhhh
Q 047870 36 GDDVKMISGEAPIVFSKACELF-------------IEELTKRSWTMTMQGKRRTLLKDDVASAVIATD-IFDFLLT 97 (102)
Q Consensus 36 d~~~~~is~eA~~~l~ka~E~F-------------i~~l~~~A~~~a~~~~rktI~~~di~~av~~~~-~~~FL~d 97 (102)
+.+...++.+|..-|.+-++.- +..|+..|...|..++++-|+.+||.+|++... ..++|.+
T Consensus 333 d~~ip~~~~~Av~~li~~a~R~Ag~~~~Ltl~~rdl~~lv~~A~~ia~~~~~~~I~ae~Ve~a~~~~~~~e~~l~e 408 (647)
T COG1067 333 DGNIPHLDKDAVEELIREAARRAGDQNKLTLRLRDLGNLVREAGDIAVSEGRKLITAEDVEEALQKRELREGQLAE 408 (647)
T ss_pred cCCCCCCCHHHHHHHHHHHHHhccccceeccCHHHHHHHHHHhhHHHhcCCcccCcHHHHHHHHHhhhhHHHHHHH
Confidence 3345566666666665544433 566777999999999999999999999998744 4555554
No 81
>TIGR00368 Mg chelatase-related protein. The N-terminal end matches very strongly a pfam Mg_chelatase domain.
Probab=72.40 E-value=17 Score=29.83 Aligned_cols=59 Identities=15% Similarity=0.180 Sum_probs=46.5
Q ss_pred CCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHH------HHHHHHHHHHHHhhCCCCeecHHHHHHHHh
Q 047870 21 HSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELF------IEELTKRSWTMTMQGKRRTLLKDDVASAVI 87 (102)
Q Consensus 21 ~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~F------i~~l~~~A~~~a~~~~rktI~~~di~~av~ 87 (102)
..+|-..+++..+ ++.++..++..+.+.+ ...+++-|..+|.-+++..|..+||..|+.
T Consensus 433 ~~l~~~~l~~~~~--------l~~~~~~~l~~a~~~~~lS~R~~~rilrvArTiAdL~g~~~i~~~hv~eA~~ 497 (499)
T TIGR00368 433 ADLNSDEIEQFCK--------LSAIDANDLEGALNKLGLSSRATHRILKVARTIADLKEEKNISREHLAEAIE 497 (499)
T ss_pred ccCCHHHHHhhcC--------CCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHh
Confidence 4445555554433 5677888888888877 778888999999999999999999999985
No 82
>PF08369 PCP_red: Proto-chlorophyllide reductase 57 kD subunit; InterPro: IPR013580 This domain is found in bacteria and plant chloroplast proteins. It often appears at the C-terminal of nitrogenase component 1 type oxidoreductases (IPR000510 from INTERPRO) and sometimes independently in bacterial proteins such as the proto-chlorophyllide reductase subunit B of the cyanobacterium Synechocystis. This domain is also associated with chlorophyllide reductase subunit Z, converts chlorophylls (Chl) into bacteriochlorophylls (BChl) by reducing ring B of the tetrapyrrole.; GO: 0016491 oxidoreductase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process, 0055114 oxidation-reduction process; PDB: 2KRU_A 2L09_A.
Probab=72.19 E-value=8.2 Score=21.40 Aligned_cols=30 Identities=10% Similarity=0.134 Sum_probs=19.9
Q ss_pred HHHHHHHHH-HHHHHhhCCCCeecHHHHHHH
Q 047870 56 LFIEELTKR-SWTMTMQGKRRTLLKDDVASA 85 (102)
Q Consensus 56 ~Fi~~l~~~-A~~~a~~~~rktI~~~di~~a 85 (102)
.|+...++. +-..|.+.|...|+.++|..|
T Consensus 14 ~fvR~~~r~~~E~~Ar~~G~~~IT~e~v~~A 44 (45)
T PF08369_consen 14 FFVRKKLRDAAEKYARERGYDEITVEVVDAA 44 (45)
T ss_dssp HHHHHHHHHHHHHHHHHCT-SEE-HHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHcCCCeECHHHHHhh
Confidence 455555544 445788899999999999765
No 83
>PF02861 Clp_N: Clp amino terminal domain; InterPro: IPR004176 This short domain is found in one or two copies at the amino terminus of ClpA and ClpB proteins from bacteria and eukaryotes. The function of these domains is uncertain but they may form a protein binding site []. The proteins are thought to be subunits of ATP-dependent proteases which act as chaperones to target the proteases to substrates.; GO: 0019538 protein metabolic process; PDB: 3FH2_A 3ZRJ_A 3ZRI_A 1QVR_C 3FES_C 2Y1R_F 3PXG_D 2Y1Q_A 3PXI_C 2K77_A ....
Probab=70.36 E-value=5.7 Score=21.59 Aligned_cols=26 Identities=4% Similarity=0.102 Sum_probs=21.2
Q ss_pred HHHHHhhCCCCeecHHHHHHHHhcCC
Q 047870 65 SWTMTMQGKRRTLLKDDVASAVIATD 90 (102)
Q Consensus 65 A~~~a~~~~rktI~~~di~~av~~~~ 90 (102)
|.+.|++.+...|+++|+..++-+.+
T Consensus 1 A~~~A~~~~~~~i~~eHlL~all~~~ 26 (53)
T PF02861_consen 1 AQELARERGHQYISPEHLLLALLEDP 26 (53)
T ss_dssp HHHHHHHTTBSSE-HHHHHHHHHHHT
T ss_pred CHHHHHHcCCCcccHHHHHHHHHhhh
Confidence 56788899999999999999976644
No 84
>TIGR02902 spore_lonB ATP-dependent protease LonB. Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.
Probab=68.74 E-value=25 Score=28.92 Aligned_cols=64 Identities=14% Similarity=0.132 Sum_probs=43.7
Q ss_pred HHHHHhhhcCC-CcccccccHHHHHHHHHH--HHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCC
Q 047870 27 RIKKIMKKSGD-DVKMISGEAPIVFSKACE--LFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATD 90 (102)
Q Consensus 27 rVkrImK~~d~-~~~~is~eA~~~l~ka~E--~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~ 90 (102)
-+..|++.... ....++.++..++...+. ..+..+++.|...|..+++++|+.+||.+++....
T Consensus 267 ei~~Il~~~a~k~~i~is~~al~~I~~y~~n~Rel~nll~~Aa~~A~~~~~~~It~~dI~~vl~~~~ 333 (531)
T TIGR02902 267 EIKEIAKNAAEKIGINLEKHALELIVKYASNGREAVNIVQLAAGIALGEGRKRILAEDIEWVAENGN 333 (531)
T ss_pred HHHHHHHHHHHHcCCCcCHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhCCCcEEcHHHHHHHhCCcc
Confidence 35555553221 223678888887766543 33556667777778888999999999999997543
No 85
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=65.88 E-value=9.5 Score=29.97 Aligned_cols=69 Identities=14% Similarity=0.199 Sum_probs=49.8
Q ss_pred CCCC---HHHHHHHhhhcCC----CcccccccHHHHHHH--HHH----HHHHHHHHHHHHHHhhCCCCeecHHHHHHHHh
Q 047870 21 HSLP---LARIKKIMKKSGD----DVKMISGEAPIVFSK--ACE----LFIEELTKRSWTMTMQGKRRTLLKDDVASAVI 87 (102)
Q Consensus 21 ~~lP---~srVkrImK~~d~----~~~~is~eA~~~l~k--a~E----~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~ 87 (102)
+.|| ..-+..|++ .-- .-+.++.++..+++. |.+ .+...++..|.+.|..+++.+++++|+..|..
T Consensus 185 I~F~pY~a~el~~Il~-~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr~A~eiAe~~~~~~v~~~~v~~a~~ 263 (366)
T COG1474 185 IVFPPYTAEELYDILR-ERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIAEREGSRKVSEDHVREAQE 263 (366)
T ss_pred eeeCCCCHHHHHHHHH-HHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHhhCCCCcCHHHHHHHHH
Confidence 4455 356666666 322 124678888877773 222 57789999999999999999999999999955
Q ss_pred cCC
Q 047870 88 ATD 90 (102)
Q Consensus 88 ~~~ 90 (102)
..+
T Consensus 264 ~~~ 266 (366)
T COG1474 264 EIE 266 (366)
T ss_pred Hhh
Confidence 444
No 86
>PF10979 DUF2786: Protein of unknown function (DUF2786); InterPro: IPR024498 This domain is found in proteins that have no known function.
Probab=64.80 E-value=13 Score=20.40 Aligned_cols=35 Identities=23% Similarity=0.303 Sum_probs=25.6
Q ss_pred HHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHH
Q 047870 25 LARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEE 60 (102)
Q Consensus 25 ~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~ 60 (102)
+.||++++. .-.+...-..|+-.++.+|-++-.+|
T Consensus 4 l~kI~kLLa-lA~~~~~~~~EA~~A~~kAq~Lm~ky 38 (43)
T PF10979_consen 4 LEKIRKLLA-LAESTGSNEHEAEAALAKAQRLMAKY 38 (43)
T ss_pred HHHHHHHHH-HhhCCCCCHHHHHHHHHHHHHHHHHh
Confidence 578999998 65553433349999999998877665
No 87
>COG5251 TAF40 Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=64.63 E-value=14 Score=26.70 Aligned_cols=68 Identities=15% Similarity=0.156 Sum_probs=53.3
Q ss_pred CCCCCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhh-CCCCeecHHHHHHHHh
Q 047870 18 AGTHSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQ-GKRRTLLKDDVASAVI 87 (102)
Q Consensus 18 ~~~~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~-~~rktI~~~di~~av~ 87 (102)
.....||.+.|||++. .--+ ..|+....++++-...+|+.++.+-|..+-.+ .-.--+.+.|+..|..
T Consensus 111 Frrt~lnKt~VKKlas-tV~n-QtVspNi~I~l~g~~KVfvGEiIElA~~Vq~~w~~sgpl~p~h~reayr 179 (199)
T COG5251 111 FRRTSLNKTQVKKLAS-TVAN-QTVSPNIRIFLQGVGKVFVGEIIELAMIVQNKWLTSGPLIPFHKREAYR 179 (199)
T ss_pred HHhcCCCHHHHHHHHH-HHhc-cccCCCeeeeeechhHHHHHHHHHHHHHHHHHhcccCCCChHHHHHHHH
Confidence 4567899999999998 5433 57999999999999999999999888776433 2244578889888764
No 88
>COG5094 TAF9 Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=63.28 E-value=42 Score=23.01 Aligned_cols=66 Identities=14% Similarity=0.216 Sum_probs=45.8
Q ss_pred HHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecH---HHHHHHHhcCCchhhh
Q 047870 28 IKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLK---DDVASAVIATDIFDFL 95 (102)
Q Consensus 28 VkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~---~di~~av~~~~~~~FL 95 (102)
|.-|+. +. .+...+...+.-+-.-+-.+.+.+.+.|.-.|+..||-.+.. +||.-|+...-...|.
T Consensus 20 ihliL~-Sl-gi~~ye~~VplQLl~FAhRYTq~vl~Dalvya~htgrg~~a~l~veDvrLA~at~v~~~F~ 88 (145)
T COG5094 20 IHLILR-SL-GIEEYEPKVPLQLLEFAHRYTQDVLEDALVYAKHTGRGHIATLGVEDVRLALATKVGRHFV 88 (145)
T ss_pred HHHHHH-hc-CchhhCccchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCcccHHHHHHHHHHHhcCCcC
Confidence 444555 32 334555555554444456788999999999999888776655 9999999876666664
No 89
>KOG2680 consensus DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=61.88 E-value=24 Score=28.20 Aligned_cols=62 Identities=18% Similarity=0.244 Sum_probs=46.0
Q ss_pred HHHHHHhh-hcCCCcccccccHHHHHHHHHH----HHHHHHHHHHHHHHhhCCCCeecHHHHHHHHh
Q 047870 26 ARIKKIMK-KSGDDVKMISGEAPIVFSKACE----LFIEELTKRSWTMTMQGKRRTLLKDDVASAVI 87 (102)
Q Consensus 26 srVkrImK-~~d~~~~~is~eA~~~l~ka~E----~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~ 87 (102)
.-+++|++ ...++-..++.+|..++++..+ .+..+|...|...|.+.+-+++..+||..+-.
T Consensus 361 ~d~~~IL~iRc~EEdv~m~~~A~d~Lt~i~~~tsLRYai~Lit~a~~~~~krk~~~v~~~di~r~y~ 427 (454)
T KOG2680|consen 361 EDIKKILRIRCQEEDVEMNPDALDLLTKIGEATSLRYAIHLITAASLVCLKRKGKVVEVDDIERVYR 427 (454)
T ss_pred HHHHHHHHhhhhhhccccCHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhcCceeehhHHHHHHH
Confidence 34566654 0344556789999999987544 45667777888899999999999999998753
No 90
>PRK09862 putative ATP-dependent protease; Provisional
Probab=60.56 E-value=44 Score=27.63 Aligned_cols=49 Identities=12% Similarity=0.100 Sum_probs=37.5
Q ss_pred cccccHHHHHHHHHHHH------HHHHHHHHHHHHhhCCCCeecHHHHHHHHhcC
Q 047870 41 MISGEAPIVFSKACELF------IEELTKRSWTMTMQGKRRTLLKDDVASAVIAT 89 (102)
Q Consensus 41 ~is~eA~~~l~ka~E~F------i~~l~~~A~~~a~~~~rktI~~~di~~av~~~ 89 (102)
.++.++..++..+.+.+ ...+++-|...|.-+++..|+++||..|+.=.
T Consensus 438 ~l~~~~~~~l~~~~~~~~lS~Ra~~rlLrvARTiADL~g~~~V~~~hv~eAl~yR 492 (506)
T PRK09862 438 KLESEDARWLEETLIHLGLSIRAWQRLLKVARTIADIDQSDIITRQHLQEAVSYR 492 (506)
T ss_pred CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHhh
Confidence 35556666666555544 56788888889999999999999999999743
No 91
>smart00350 MCM minichromosome maintenance proteins.
Probab=59.40 E-value=42 Score=27.36 Aligned_cols=66 Identities=17% Similarity=0.105 Sum_probs=50.2
Q ss_pred CCCCHHHHHHHhhhcCCC--cccccccHHHHHHHHHHH-------------------HHHHHHHHHHHHHhhCCCCeecH
Q 047870 21 HSLPLARIKKIMKKSGDD--VKMISGEAPIVFSKACEL-------------------FIEELTKRSWTMTMQGKRRTLLK 79 (102)
Q Consensus 21 ~~lP~srVkrImK~~d~~--~~~is~eA~~~l~ka~E~-------------------Fi~~l~~~A~~~a~~~~rktI~~ 79 (102)
..++...+++.+. .-.. ...+|.++..++...+.. ....|..-|-..|+-+.|..|+.
T Consensus 416 ~~~~~~~l~~yi~-~ar~~~~P~ls~~~~~~i~~~y~~~R~~~~~~~~~~~~~~t~R~l~sliRla~A~A~l~~r~~V~~ 494 (509)
T smart00350 416 VPISQEFLRKYIA-YAREKIKPKLSEEAAEKLVKAYVDLRKEDSQSEARSSIPITVRQLESIIRLSEAHAKMRLSDVVEE 494 (509)
T ss_pred ccCCHHHHHHHHH-HHHhcCCCCCCHHHHHHHHHHHHHhcccccccccccccCcCHHHHHHHHHHHHHHHHHcCCCccCH
Confidence 4688889998886 3332 246899988877554332 23677788888899999999999
Q ss_pred HHHHHHHh
Q 047870 80 DDVASAVI 87 (102)
Q Consensus 80 ~di~~av~ 87 (102)
+|+..|++
T Consensus 495 ~Dv~~ai~ 502 (509)
T smart00350 495 ADVEEAIR 502 (509)
T ss_pred HHHHHHHH
Confidence 99999986
No 92
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=57.96 E-value=17 Score=28.59 Aligned_cols=32 Identities=9% Similarity=0.235 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHhhCCCCeecHHHHHHHHhcC
Q 047870 58 IEELTKRSWTMTMQGKRRTLLKDDVASAVIAT 89 (102)
Q Consensus 58 i~~l~~~A~~~a~~~~rktI~~~di~~av~~~ 89 (102)
+..++.+|...|.+++++.|+.+|+..|+...
T Consensus 341 l~~l~~eA~~~a~~~~~~~i~~~d~~~A~~~~ 372 (389)
T PRK03992 341 LKAICTEAGMFAIRDDRTEVTMEDFLKAIEKV 372 (389)
T ss_pred HHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHH
Confidence 67788899999989999999999999999764
No 93
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=57.82 E-value=16 Score=29.55 Aligned_cols=32 Identities=13% Similarity=0.211 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHhhCCCCeecHHHHHHHHhcC
Q 047870 58 IEELTKRSWTMTMQGKRRTLLKDDVASAVIAT 89 (102)
Q Consensus 58 i~~l~~~A~~~a~~~~rktI~~~di~~av~~~ 89 (102)
+..++.+|...|.+.++..|+.+|+..|+.+.
T Consensus 393 I~~i~~eA~~~Alr~~r~~Vt~~D~~~A~~~v 424 (438)
T PTZ00361 393 IKAICTEAGLLALRERRMKVTQADFRKAKEKV 424 (438)
T ss_pred HHHHHHHHHHHHHHhcCCccCHHHHHHHHHHH
Confidence 66788999999999999999999999999763
No 94
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=56.29 E-value=41 Score=28.55 Aligned_cols=50 Identities=8% Similarity=-0.005 Sum_probs=37.5
Q ss_pred cccccccHHHHHHHHHHH-------------HHHHHHHHHHHHHhhCCCCeecHHHHHHHHhc
Q 047870 39 VKMISGEAPIVFSKACEL-------------FIEELTKRSWTMTMQGKRRTLLKDDVASAVIA 88 (102)
Q Consensus 39 ~~~is~eA~~~l~ka~E~-------------Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~ 88 (102)
...++.+|...+-+-+.. =+..|..+|..+|+..+++.|+.+|+..|+..
T Consensus 337 l~~f~~eAVa~LI~~~~R~ag~r~~lsl~~~~l~~l~r~a~~~a~~~~~~~i~~~~v~~a~~~ 399 (637)
T PRK13765 337 IPHFDRDAVEEIIREAKRRAGRKGHLTLKLRDLGGLVRVAGDIARSEGAELTTAEHVLEAKKI 399 (637)
T ss_pred CCCCCHHHHHHHHHHHHHHhCCccccccCHHHHHHHHHHHHHHHHhhccceecHHHHHHHHHh
Confidence 345777777666543332 24568889999999999999999999988753
No 95
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=56.18 E-value=19 Score=27.74 Aligned_cols=42 Identities=17% Similarity=0.154 Sum_probs=32.2
Q ss_pred HHHHHHHHHHH----HHHHHHHHHHHHhhCCCCeecHHHHHHHHhc
Q 047870 47 PIVFSKACELF----IEELTKRSWTMTMQGKRRTLLKDDVASAVIA 88 (102)
Q Consensus 47 ~~~l~ka~E~F----i~~l~~~A~~~a~~~~rktI~~~di~~av~~ 88 (102)
...+++.++-| +..++.+|...|-..++..|+.+|+..|+..
T Consensus 317 ~~~la~~t~g~sg~dl~~l~~~A~~~a~~~~~~~i~~~d~~~a~~~ 362 (364)
T TIGR01242 317 LEAIAKMTEGASGADLKAICTEAGMFAIREERDYVTMDDFIKAVEK 362 (364)
T ss_pred HHHHHHHcCCCCHHHHHHHHHHHHHHHHHhCCCccCHHHHHHHHHH
Confidence 34445544433 5578888888888999999999999999875
No 96
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=55.86 E-value=19 Score=28.63 Aligned_cols=31 Identities=13% Similarity=0.211 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHhhCCCCeecHHHHHHHHhc
Q 047870 58 IEELTKRSWTMTMQGKRRTLLKDDVASAVIA 88 (102)
Q Consensus 58 i~~l~~~A~~~a~~~~rktI~~~di~~av~~ 88 (102)
+..++.+|...|.+.++..|+.+|+..|+.+
T Consensus 355 I~~l~~eA~~~A~r~~~~~i~~~df~~A~~~ 385 (398)
T PTZ00454 355 IAAICQEAGMQAVRKNRYVILPKDFEKGYKT 385 (398)
T ss_pred HHHHHHHHHHHHHHcCCCccCHHHHHHHHHH
Confidence 7789999999999999999999999999975
No 97
>TIGR01128 holA DNA polymerase III, delta subunit. subunit around DNA forming a DNA sliding clamp.
Probab=49.56 E-value=75 Score=23.16 Aligned_cols=60 Identities=17% Similarity=0.179 Sum_probs=36.2
Q ss_pred cccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCC---chhhhhhh
Q 047870 39 VKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATD---IFDFLLTL 98 (102)
Q Consensus 39 ~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~---~~~FL~d~ 98 (102)
...++.++...+...+.-=+..+.++--..+-..+.++|+.+||.+.+.... -|+|+..+
T Consensus 128 g~~i~~~a~~~l~~~~~~d~~~l~~el~KL~~~~~~~~It~e~I~~~~~~~~~~~if~l~dal 190 (302)
T TIGR01128 128 GLRIDPDAVQLLAELVEGNLLAIAQELEKLALYAPDGKITLEDVEEAVSDSARFNVFDLTDAL 190 (302)
T ss_pred CCCCCHHHHHHHHHHhCcHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHhhhhcCCHHHHHHHH
Confidence 3579999988887776532333333333333333334799999999887543 35555544
No 98
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=47.76 E-value=28 Score=28.04 Aligned_cols=58 Identities=14% Similarity=0.233 Sum_probs=43.5
Q ss_pred HHhhhcCCCcccccccH-HHHHHHHHHHH----HHHHHHHHHHHHhhCCCCeecHHHHHHHHhc
Q 047870 30 KIMKKSGDDVKMISGEA-PIVFSKACELF----IEELTKRSWTMTMQGKRRTLLKDDVASAVIA 88 (102)
Q Consensus 30 rImK~~d~~~~~is~eA-~~~l~ka~E~F----i~~l~~~A~~~a~~~~rktI~~~di~~av~~ 88 (102)
+|+| .+.--++++.+. ...+++.++-| +..++.+|--.|-+.+|..|+.+|+.+|+++
T Consensus 329 ~Il~-IHtrkM~l~~dvd~e~la~~~~g~sGAdlkaictEAGm~AiR~~R~~Vt~~DF~~Av~K 391 (406)
T COG1222 329 EILK-IHTRKMNLADDVDLELLARLTEGFSGADLKAICTEAGMFAIRERRDEVTMEDFLKAVEK 391 (406)
T ss_pred HHHH-HHhhhccCccCcCHHHHHHhcCCCchHHHHHHHHHHhHHHHHhccCeecHHHHHHHHHH
Confidence 4555 444434455433 45667777766 7889999999999999999999999999864
No 99
>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.
Probab=46.82 E-value=1.3e+02 Score=23.33 Aligned_cols=47 Identities=13% Similarity=0.201 Sum_probs=34.5
Q ss_pred cccccHHHHHHHHHHHHH-------HHHHHHHHHHHhhCCCCeecHHHHHHHHh
Q 047870 41 MISGEAPIVFSKACELFI-------EELTKRSWTMTMQGKRRTLLKDDVASAVI 87 (102)
Q Consensus 41 ~is~eA~~~l~ka~E~Fi-------~~l~~~A~~~a~~~~rktI~~~di~~av~ 87 (102)
.++.+....+...+..+- ..+...|-..|.-+||..|+++||..++.
T Consensus 254 ~v~d~~~~~i~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~~dDv~~~a~ 307 (337)
T TIGR02030 254 TIPYDVLVKVAELCAELDVDGLRGELTLNRAAKALAAFEGRTEVTVDDIRRVAV 307 (337)
T ss_pred cCCHHHHHHHHHHHHHHCCCCCcHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 467777766666555442 34667777788889999999999998764
No 100
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=46.79 E-value=1.4e+02 Score=23.46 Aligned_cols=61 Identities=11% Similarity=0.094 Sum_probs=43.0
Q ss_pred HHHHHHHhhhcCCCcccccccHHHHHHHHHHHHH-------HHHHHHHHHHHhhCCCCeecHHHHHHHHh
Q 047870 25 LARIKKIMKKSGDDVKMISGEAPIVFSKACELFI-------EELTKRSWTMTMQGKRRTLLKDDVASAVI 87 (102)
Q Consensus 25 ~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi-------~~l~~~A~~~a~~~~rktI~~~di~~av~ 87 (102)
...|....+ .-+++ .++.+...++...+..+- ..+...|-..|.-+||..|+++||..+..
T Consensus 253 ~~~I~~ar~-~~~~V-~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~pdDv~~~a~ 320 (350)
T CHL00081 253 RSKIVAAQN-LLPKV-EIDYDLRVKISQICSELDVDGLRGDIVTNRAAKALAAFEGRTEVTPKDIFKVIT 320 (350)
T ss_pred HHHHHHHHH-hcCCC-ccCHHHHHHHHHHHHHHCCCCChHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 455555544 44553 577777777777666652 35666777777789999999999998864
No 101
>PRK07452 DNA polymerase III subunit delta; Validated
Probab=46.55 E-value=82 Score=23.57 Aligned_cols=53 Identities=13% Similarity=0.078 Sum_probs=35.9
Q ss_pred CcccccccHHHHHHHHHHHHHHHHHHHHHHHHhh--CCCCeecHHHHHHHHhcCC
Q 047870 38 DVKMISGEAPIVFSKACELFIEELTKRSWTMTMQ--GKRRTLLKDDVASAVIATD 90 (102)
Q Consensus 38 ~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~--~~rktI~~~di~~av~~~~ 90 (102)
....++.+|...+...+.-=...+.++--..+-. .++.+|+.+||...+...+
T Consensus 146 ~g~~i~~~a~~~L~~~~g~dl~~l~~EleKL~ly~~~~~~~It~~~V~~~v~~~~ 200 (326)
T PRK07452 146 LGVKLTPEAAELLAEAVGNDSRRLYNELEKLALYAENSTKPISAEEVKALVSNTT 200 (326)
T ss_pred cCCCCCHHHHHHHHHHhCccHHHHHHHHHHHHHhccCCCCccCHHHHHHHhccCc
Confidence 3457899998888887664333444444444444 4577899999999987644
No 102
>PRK05907 hypothetical protein; Provisional
Probab=45.69 E-value=66 Score=24.66 Aligned_cols=53 Identities=19% Similarity=0.140 Sum_probs=33.5
Q ss_pred cccccccHHHHHHHHH-HHHHHHHHHHHHHHHhh-CCCCeecHHHHHHHHhcCCc
Q 047870 39 VKMISGEAPIVFSKAC-ELFIEELTKRSWTMTMQ-GKRRTLLKDDVASAVIATDI 91 (102)
Q Consensus 39 ~~~is~eA~~~l~ka~-E~Fi~~l~~~A~~~a~~-~~rktI~~~di~~av~~~~~ 91 (102)
...++.+|..++...+ +-=+..+.++--..+-. ..+++|+.+||...+....+
T Consensus 151 g~~i~~~a~~~L~~~~~~~nL~~l~~EleKL~ly~g~~~~It~e~V~~lv~~s~e 205 (311)
T PRK05907 151 GISCSLGLASLFVSKFPQTGLFEILSEFQKLLCQMGKKESLEASDIQSFVVKKEA 205 (311)
T ss_pred CCCcCHHHHHHHHHHccCCCHHHHHHHHHHHHHhcCCCCeECHHHHHHHhcCccc
Confidence 3567888776666655 32222333333333334 66889999999999977554
No 103
>PRK05574 holA DNA polymerase III subunit delta; Reviewed
Probab=45.17 E-value=86 Score=23.32 Aligned_cols=60 Identities=17% Similarity=0.196 Sum_probs=35.7
Q ss_pred ccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCC---chhhhhhhc
Q 047870 40 KMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATD---IFDFLLTLV 99 (102)
Q Consensus 40 ~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~---~~~FL~d~v 99 (102)
..++.+|...+...+.-=+..+..+.-..+-..+.+.|+.+||.+.+.... -|+|+..++
T Consensus 164 ~~i~~~a~~~L~~~~~~d~~~l~~El~KL~l~~~~~~It~~~I~~~i~~~~~~~~f~l~dai~ 226 (340)
T PRK05574 164 LQIDAAALQLLAERVEGNLLALAQELEKLALLYPDGKITLEDVEEAVPDSARFDVFDLVDAIL 226 (340)
T ss_pred CCCCHHHHHHHHHHhCchHHHHHHHHHHHHhhcCCCCCCHHHHHHHHhhhhcCCHHHHHHHHH
Confidence 478888888887776533333333333333332222399999999886533 456555443
No 104
>PRK06585 holA DNA polymerase III subunit delta; Reviewed
Probab=45.01 E-value=66 Score=24.30 Aligned_cols=68 Identities=12% Similarity=-0.035 Sum_probs=41.4
Q ss_pred HHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhh-CCCCeecHHHHHHHHhcCCc---hhhhhhh
Q 047870 28 IKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQ-GKRRTLLKDDVASAVIATDI---FDFLLTL 98 (102)
Q Consensus 28 VkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~-~~rktI~~~di~~av~~~~~---~~FL~d~ 98 (102)
|++..+ .....++.+|...+...++-=+..+.++--..+-. .+.++|+.+||...+..... |+|+..+
T Consensus 151 i~~~~~---~~g~~i~~~a~~~L~~~~g~dl~~l~~EleKL~ly~~~~~~It~edV~~lv~~~~e~~if~l~dai 222 (343)
T PRK06585 151 IDDELA---EAGLRITPDARALLVALLGGDRLASRNEIEKLALYAHGKGEITLDDVRAVVGDASALSLDDAADAA 222 (343)
T ss_pred HHHHHH---HCCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHhCCcccccHHHHHHHH
Confidence 444444 33457999999888887764222333333333333 44568999999999876543 5554443
No 105
>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]
Probab=44.09 E-value=32 Score=27.42 Aligned_cols=66 Identities=14% Similarity=0.133 Sum_probs=46.5
Q ss_pred CCCCHHHHHHHhhhcC--CCcccccccHHHHHHHH----HHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHh
Q 047870 21 HSLPLARIKKIMKKSG--DDVKMISGEAPIVFSKA----CELFIEELTKRSWTMTMQGKRRTLLKDDVASAVI 87 (102)
Q Consensus 21 ~~lP~srVkrImK~~d--~~~~~is~eA~~~l~ka----~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~ 87 (102)
..+|-+-++.|++ -- .+.-.+..+|..+++.. .=.+.-.|..-|...|+-+||+.|..+||..+-.
T Consensus 365 ~~y~~~e~r~Ii~-~Ra~~E~l~~~e~a~~~l~~~gt~tsLRy~vqLl~p~~~~ak~~g~~~i~v~dvee~~~ 436 (456)
T KOG1942|consen 365 LPYDEEEIRQIIK-IRAQVEGLQVEEEALDLLAEIGTSTSLRYAVQLLTPASILAKTNGRKEISVEDVEEVTE 436 (456)
T ss_pred ccCCHHHHHHHHH-HHHhhhcceecHHHHHHHHhhccchhHHHHHHhcCHHHHHHHHcCCceeecccHHHHHH
Confidence 4566677777776 32 34457788888888662 2234445555788899999999999999987753
No 106
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=43.10 E-value=53 Score=24.52 Aligned_cols=57 Identities=14% Similarity=0.154 Sum_probs=41.0
Q ss_pred cccccHHHHHHHHHHHHHHH-HH-----HHHHHHHhhCCCCeecHHHHHHHHhcCCchhhhhh
Q 047870 41 MISGEAPIVFSKACELFIEE-LT-----KRSWTMTMQGKRRTLLKDDVASAVIATDIFDFLLT 97 (102)
Q Consensus 41 ~is~eA~~~l~ka~E~Fi~~-l~-----~~A~~~a~~~~rktI~~~di~~av~~~~~~~FL~d 97 (102)
...++-..++.+|+|.|+.. =. ..-.....+.+.|.+++.++.+.+++..+..|+.+
T Consensus 92 ~f~~nEielfrkalE~im~sed~~~asst~~~~~vlq~k~k~L~ks~iE~lLqkf~q~gwf~e 154 (235)
T KOG4718|consen 92 GFTANEIELFRKALEKIMSSEDCHIASSTAYNDIVLQAKSKPLKKSRIEELLQKFIQMGWFME 154 (235)
T ss_pred CCCHHHHHHHHHHHHHHHhhhHhhhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhchhhe
Confidence 34567788999999999876 11 11122334578889999999999998888887765
No 107
>PF09123 DUF1931: Domain of unknown function (DUF1931); InterPro: IPR015207 This entry represents a set of hypothetical bacterial proteins containing a core of six alpha-helices, where one central helix is surrounded by the other five. The exact function of this family has not, as yet, been determined []. ; PDB: 1WWS_A 1WWI_A 1R4V_A.
Probab=40.64 E-value=14 Score=25.52 Aligned_cols=41 Identities=12% Similarity=0.074 Sum_probs=27.1
Q ss_pred ccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHH
Q 047870 42 ISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDV 82 (102)
Q Consensus 42 is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di 82 (102)
+-++-..-++.-.+.=+.+|...|.+.|+.+||..|.+.|+
T Consensus 13 vdK~d~~r~~d~V~~Kl~DLl~va~~~Ak~ngRdvI~~~DL 53 (138)
T PF09123_consen 13 VDKNDAKRYSDFVEKKLYDLLLVAQENAKANGRDVIEPRDL 53 (138)
T ss_dssp --HHHHHHHHHHHHHHHHHCCCCHHHHHHHTT-SEE-GGGS
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeeccccC
Confidence 33444444455555556677778999999999999999985
No 108
>COG1466 HolA DNA polymerase III, delta subunit [DNA replication, recombination, and repair]
Probab=38.04 E-value=1.2e+02 Score=23.18 Aligned_cols=54 Identities=13% Similarity=0.027 Sum_probs=37.0
Q ss_pred CcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCc
Q 047870 38 DVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATDI 91 (102)
Q Consensus 38 ~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~ 91 (102)
...+++++|..++..+++-=...+.++-...+--.+-++|+.+||..+|.+...
T Consensus 156 ~~l~i~~~a~~~L~~~~~~nl~~i~~Ei~KL~l~~~~~~I~~~~V~~~v~~~~~ 209 (334)
T COG1466 156 LGLKIDQEAIQLLLEALGGNLLAIAQEIEKLALYAGDKEITLEDVEEVVSDVAE 209 (334)
T ss_pred cCCCCCHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCCcCCHHHHHHHHhcccc
Confidence 446899999999988887333333333333333444449999999999987654
No 109
>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]
Probab=36.86 E-value=99 Score=23.67 Aligned_cols=57 Identities=11% Similarity=0.223 Sum_probs=46.7
Q ss_pred HHHHHhhhcCCCcccccccHHHHHHHHHH---HHHHHHHHHHHHHHhhCCCCeecHHHHH
Q 047870 27 RIKKIMKKSGDDVKMISGEAPIVFSKACE---LFIEELTKRSWTMTMQGKRRTLLKDDVA 83 (102)
Q Consensus 27 rVkrImK~~d~~~~~is~eA~~~l~ka~E---~Fi~~l~~~A~~~a~~~~rktI~~~di~ 83 (102)
-++-.++++..+...++.+|..++..+.+ .-|+.++..|.+.|-+.|+..|+...+.
T Consensus 208 yl~~~Le~a~~~~~l~~~~a~~~i~~~sqg~P~lin~~~~~Al~~a~~a~~~~v~~a~~~ 267 (269)
T COG3267 208 YLRHRLEGAGLPEPLFSDDALLLIHEASQGIPRLINNLATLALDAAYSAGEDGVSEAEIK 267 (269)
T ss_pred HHHHHHhccCCCcccCChhHHHHHHHHhccchHHHHHHHHHHHHHHHHcCCCccchhhcc
Confidence 34455554555556899999999999988 8899999999999999999999977654
No 110
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=36.65 E-value=1.5e+02 Score=21.82 Aligned_cols=66 Identities=14% Similarity=0.148 Sum_probs=44.8
Q ss_pred CCHHHHHHHhhhcC-CCcccccccHHHHHHHHHH---HHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhc
Q 047870 23 LPLARIKKIMKKSG-DDVKMISGEAPIVFSKACE---LFIEELTKRSWTMTMQGKRRTLLKDDVASAVIA 88 (102)
Q Consensus 23 lP~srVkrImK~~d-~~~~~is~eA~~~l~ka~E---~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~ 88 (102)
++..-++.|++..- .....++.++...+.+.+. .++..++..++..|...+...|+.+++..++..
T Consensus 159 l~~~e~~~il~~~~~~~~~~~~~~al~~ia~~~~G~pR~~~~ll~~~~~~a~~~~~~~it~~~v~~~l~~ 228 (305)
T TIGR00635 159 YTVEELAEIVSRSAGLLNVEIEPEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQKIINRDIALKALEM 228 (305)
T ss_pred CCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHH
Confidence 34444555555211 1223678888888877654 456778888888877666678999999999876
No 111
>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.
Probab=36.57 E-value=55 Score=26.40 Aligned_cols=31 Identities=10% Similarity=0.233 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHhhCCCCeecHHHHHHHHhc
Q 047870 58 IEELTKRSWTMTMQGKRRTLLKDDVASAVIA 88 (102)
Q Consensus 58 i~~l~~~A~~~a~~~~rktI~~~di~~av~~ 88 (102)
+..++.+|...+.+.+++.|+.+|+..|+..
T Consensus 264 l~~l~~eA~~~a~~~~~~~i~~~~l~~a~~~ 294 (495)
T TIGR01241 264 LANLLNEAALLAARKNKTEITMNDIEEAIDR 294 (495)
T ss_pred HHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 5677777777777888899999999999985
No 112
>TIGR02442 Cob-chelat-sub cobaltochelatase subunit. A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.
Probab=36.16 E-value=2.2e+02 Score=23.96 Aligned_cols=48 Identities=21% Similarity=0.205 Sum_probs=37.0
Q ss_pred ccccccHHHHHHHHHHHHH-------HHHHHHHHHHHhhCCCCeecHHHHHHHHh
Q 047870 40 KMISGEAPIVFSKACELFI-------EELTKRSWTMTMQGKRRTLLKDDVASAVI 87 (102)
Q Consensus 40 ~~is~eA~~~l~ka~E~Fi-------~~l~~~A~~~a~~~~rktI~~~di~~av~ 87 (102)
..++.+...++...+..+- ..+++.|...|.-++|..|+.+||..|+.
T Consensus 248 V~is~~~~~~l~~~~~~~~i~s~Ra~i~~~r~Ara~AaL~gr~~V~~~Dv~~A~~ 302 (633)
T TIGR02442 248 VRISDSLIRFISELCIEFGVDGHRADIVMARAARALAALDGRRRVTAEDVREAAE 302 (633)
T ss_pred CCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHH
Confidence 3578888777777665552 45667777788889999999999998875
No 113
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=34.54 E-value=1.8e+02 Score=21.95 Aligned_cols=69 Identities=14% Similarity=0.115 Sum_probs=48.0
Q ss_pred CCCHHHHHHHhhhc-CCCcccccccHHHHHHHHHH---HHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCC
Q 047870 22 SLPLARIKKIMKKS-GDDVKMISGEAPIVFSKACE---LFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATD 90 (102)
Q Consensus 22 ~lP~srVkrImK~~-d~~~~~is~eA~~~l~ka~E---~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~ 90 (102)
.++..-+..|++.. ......++.++...+++.+. ..+..+.+.+..++...+.+.|+.+++..++...+
T Consensus 179 ~~~~~e~~~il~~~~~~~~~~~~~~~~~~ia~~~~G~pR~a~~~l~~~~~~a~~~~~~~I~~~~v~~~l~~~~ 251 (328)
T PRK00080 179 FYTVEELEKIVKRSARILGVEIDEEGALEIARRSRGTPRIANRLLRRVRDFAQVKGDGVITKEIADKALDMLG 251 (328)
T ss_pred CCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhC
Confidence 34445555555522 12234688888888887764 55777888888888777777899999999997643
No 114
>KOG0784 consensus Isocitrate dehydrogenase, gamma subunit [Amino acid transport and metabolism]
Probab=32.46 E-value=29 Score=27.65 Aligned_cols=31 Identities=10% Similarity=0.176 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHHHhhCCCCeecHHHHHH
Q 047870 54 CELFIEELTKRSWTMTMQGKRRTLLKDDVAS 84 (102)
Q Consensus 54 ~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~ 84 (102)
+..--+.+++-|++.|.+.|||.|+.=|=++
T Consensus 182 T~~kseRIaryAF~yA~k~gRKkVTaVHKAn 212 (375)
T KOG0784|consen 182 TRFKSERIARYAFEYAKKNGRKKVTAVHKAN 212 (375)
T ss_pred hhhhhHHHHHHHHHHHHHhCCceEEEEeccC
Confidence 3444568899999999999999999877555
No 115
>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]
Probab=31.62 E-value=41 Score=26.78 Aligned_cols=31 Identities=13% Similarity=0.221 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHhhCCCCeecHHHHHHHHhc
Q 047870 58 IEELTKRSWTMTMQGKRRTLLKDDVASAVIA 88 (102)
Q Consensus 58 i~~l~~~A~~~a~~~~rktI~~~di~~av~~ 88 (102)
|..++.+|--.|-+..|++++.+|+.+|.++
T Consensus 395 IkAictEaGllAlRerRm~vt~~DF~ka~e~ 425 (440)
T KOG0726|consen 395 IKAICTEAGLLALRERRMKVTMEDFKKAKEK 425 (440)
T ss_pred HHHHHHHHhHHHHHHHHhhccHHHHHHHHHH
Confidence 6778889999999999999999999999875
No 116
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=31.58 E-value=2.5e+02 Score=21.83 Aligned_cols=62 Identities=8% Similarity=-0.025 Sum_probs=43.6
Q ss_pred CCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHH-------HHHHHHHHHHHhhCCCCeecHHHHHHHH
Q 047870 23 LPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFI-------EELTKRSWTMTMQGKRRTLLKDDVASAV 86 (102)
Q Consensus 23 lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi-------~~l~~~A~~~a~~~~rktI~~~di~~av 86 (102)
.-...|...-+ .-+.+ .++.+...++...+..+- ..|...|...|.-+||..|+++||..+.
T Consensus 235 ~~~~~i~~a~~-~~~~V-~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~~aA~a~A~l~Gr~~V~~~Di~~~~ 303 (334)
T PRK13407 235 QLRGRILGARA-RLPQL-KTPNTVLHDCAALCIALGSDGLRGELTLLRAARALAAFEGAEAVGRSHLRSVA 303 (334)
T ss_pred CCHHHHHHHHH-hcCCc-ccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHHcCCCeeCHHHHHHHH
Confidence 33456666555 55553 577777777776665552 2277778888889999999999998765
No 117
>PRK08487 DNA polymerase III subunit delta; Validated
Probab=30.50 E-value=1.9e+02 Score=21.95 Aligned_cols=59 Identities=8% Similarity=-0.041 Sum_probs=33.5
Q ss_pred HHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCC
Q 047870 27 RIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATD 90 (102)
Q Consensus 27 rVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~ 90 (102)
.|+..++ .....++.+|...+...++-=...+..+--..+--.+ +|+.+||..++....
T Consensus 143 ~i~~~~~---~~g~~i~~~a~~~L~~~~g~dl~~l~~ELeKL~ly~~--~It~edV~~~v~~~~ 201 (328)
T PRK08487 143 LLQERAK---ELGLDIDQNALNHLYFIHNEDLALAANELEKLAILNE--PITLKDIQELVFGLG 201 (328)
T ss_pred HHHHHHH---HhCCCCCHHHHHHHHHHhCcHHHHHHHHHHHHHHhcC--CCCHHHHHHHhcccc
Confidence 3444444 2335788888888877655222222222222222223 799999999986544
No 118
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=30.27 E-value=1.2e+02 Score=25.58 Aligned_cols=61 Identities=13% Similarity=-0.033 Sum_probs=45.3
Q ss_pred HHHHHHHhhhcCCCcccccccHHHHHHHHHHHHH-------HHHHHHHHHHHhhCCCCeecHHHHHHHHh
Q 047870 25 LARIKKIMKKSGDDVKMISGEAPIVFSKACELFI-------EELTKRSWTMTMQGKRRTLLKDDVASAVI 87 (102)
Q Consensus 25 ~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi-------~~l~~~A~~~a~~~~rktI~~~di~~av~ 87 (102)
..+|.+.-+ .-++ ..++.+....++.++..|- ..+++.|..+|.-++|..|+.+||..|+.
T Consensus 181 ~~~I~~AR~-rl~~-v~v~~~~l~~i~~~~~~~gv~S~Ra~i~llraARa~AaL~Gr~~V~~~dv~~Aa~ 248 (584)
T PRK13406 181 ADDIAAARA-RLPA-VGPPPEAIAALCAAAAALGIASLRAPLLALRAARAAAALAGRTAVEEEDLALAAR 248 (584)
T ss_pred HHHHHHHHH-HHcc-CCCCHHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 345555544 3343 4678888877777776663 46788888888899999999999999874
No 119
>PF08726 EFhand_Ca_insen: Ca2+ insensitive EF hand; InterPro: IPR014837 EF hands are helix-loop-helix binding motifs involved in the regulation of many cellular processes. EF hands usually bind to Ca2+ ions, which cause a major conformational change that allows the protein to interact with its designated targets. This protein corresponds to an EF hand which has partially or entirely lost its calcium-binding properties. The calcium insensitive EF hand is still able to mediate protein-protein recognition []. ; PDB: 1H8B_A 1SJJ_B.
Probab=30.25 E-value=78 Score=19.10 Aligned_cols=37 Identities=5% Similarity=0.289 Sum_probs=29.3
Q ss_pred HHHHHHHhhCCCCeecHHHHHHHHhcCCchhhhhhhccC
Q 047870 63 KRSWTMTMQGKRRTLLKDDVASAVIATDIFDFLLTLVSE 101 (102)
Q Consensus 63 ~~A~~~a~~~~rktI~~~di~~av~~~~~~~FL~d~vp~ 101 (102)
.+|+..- .+++-=|+..||...+-..+- +||..-.|+
T Consensus 9 ~~aFr~l-A~~KpyVT~~dLr~~l~pe~a-ey~~~~Mp~ 45 (69)
T PF08726_consen 9 EEAFRAL-AGGKPYVTEEDLRRSLTPEQA-EYCISRMPP 45 (69)
T ss_dssp HHHHHHH-CTSSSCEEHHHHHHHS-CCCH-HHHHCCSEC
T ss_pred HHHHHHH-HcCCCcccHHHHHHHcCcHHH-HHHHHHCcc
Confidence 3566665 678899999999999988877 999887775
No 120
>KOG0785 consensus Isocitrate dehydrogenase, alpha subunit [Amino acid transport and metabolism]
Probab=29.61 E-value=99 Score=24.50 Aligned_cols=45 Identities=13% Similarity=0.079 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCC
Q 047870 46 APIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATD 90 (102)
Q Consensus 46 A~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~ 90 (102)
....+-..+|.=-..+++-|++.|++++|+.++.-|=++.++..+
T Consensus 168 VvqsiK~IT~~AS~Ria~~AF~yAr~~~R~~vtvvHKaNImr~tD 212 (365)
T KOG0785|consen 168 VVQSIKLITEAASRRIAEYAFEYARQNGRKRVTVVHKANIMRMTD 212 (365)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcCCCceEEEehhhhhhhcc
Confidence 444444455555567888899999999999999999888887766
No 121
>PF08218 Citrate_ly_lig: Citrate lyase ligase C-terminal domain; InterPro: IPR013166 [Citrate (pro-3S)-lyase] ligase (6.2.1.22 from EC), also known as citrate lyase ligase, is responsible for acetylation of the prosthetic group (2-(5''-phosphoribosyl)-3'-dephosphocoenzyme-A) of the gamma subunit of citrate lyase. It converts the inactive thiol form of the enzyme to the active form. In Clostridium sphenoides, citrate lyase ligase actively degrades citrate. In Clostridium sporosphaeroides and Lactococcus lactis, however, the enzyme is under stringent regulatory control. The enzyme's activity in anaerobic bacteria is modulated by phosphorylation and dephosphorylation []. The proteins in this entry represent the C-terminal domain of citrate lyase ligase.; GO: 0008771 [citrate (pro-3S)-lyase] ligase activity
Probab=29.11 E-value=57 Score=23.57 Aligned_cols=30 Identities=20% Similarity=0.233 Sum_probs=26.6
Q ss_pred CCCCeecHHHHHHHHhcCCchhhhhhhccCC
Q 047870 72 GKRRTLLKDDVASAVIATDIFDFLLTLVSES 102 (102)
Q Consensus 72 ~~rktI~~~di~~av~~~~~~~FL~d~vp~~ 102 (102)
.+...|++.-+.+++++.+ ++-+.++||+|
T Consensus 148 ~~g~~ISAS~VR~~l~~~~-~~~i~~lVP~t 177 (182)
T PF08218_consen 148 INGEPISASRVRKLLKEGD-FEEIKKLVPET 177 (182)
T ss_pred CCCcEEcHHHHHHHHHcCC-HHHHHHhCCHh
Confidence 5677899999999999986 89999999986
No 122
>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau. This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.
Probab=29.09 E-value=1.6e+02 Score=22.08 Aligned_cols=50 Identities=16% Similarity=0.106 Sum_probs=27.6
Q ss_pred ccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCC
Q 047870 40 KMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATD 90 (102)
Q Consensus 40 ~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~ 90 (102)
..++.++...+...++-=...+....-..+...+ +.|+.+||..++....
T Consensus 194 ~~i~~~a~~~l~~~~~g~~~~a~~~lekl~~~~~-~~it~~~v~~~~~~~~ 243 (355)
T TIGR02397 194 IKIEDEALELIARAADGSLRDALSLLDQLISFGN-GNITYEDVNELLGLVD 243 (355)
T ss_pred CCCCHHHHHHHHHHcCCChHHHHHHHHHHHhhcC-CCCCHHHHHHHhCCCC
Confidence 4678788777766654322222222222222222 3499999988876544
No 123
>PRK10733 hflB ATP-dependent metalloprotease; Reviewed
Probab=28.97 E-value=83 Score=26.55 Aligned_cols=39 Identities=10% Similarity=0.144 Sum_probs=31.0
Q ss_pred HHHHHHHH----HHHHHHHHHHHHHhhCCCCeecHHHHHHHHh
Q 047870 49 VFSKACEL----FIEELTKRSWTMTMQGKRRTLLKDDVASAVI 87 (102)
Q Consensus 49 ~l~ka~E~----Fi~~l~~~A~~~a~~~~rktI~~~di~~av~ 87 (102)
.+++.+.= =+..|+.+|...|.+.+++.|+..|+..|+.
T Consensus 348 ~la~~t~G~sgadl~~l~~eAa~~a~r~~~~~i~~~d~~~a~~ 390 (644)
T PRK10733 348 IIARGTPGFSGADLANLVNEAALFAARGNKRVVSMVEFEKAKD 390 (644)
T ss_pred HHHhhCCCCCHHHHHHHHHHHHHHHHHcCCCcccHHHHHHHHH
Confidence 45555543 4678888888888899999999999999875
No 124
>PHA02943 hypothetical protein; Provisional
Probab=28.41 E-value=1.9e+02 Score=20.52 Aligned_cols=80 Identities=8% Similarity=0.145 Sum_probs=51.5
Q ss_pred CCCCCHHHHHHHhhhcCCCcccc-----cccHHHHH-HHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCc-h
Q 047870 20 THSLPLARIKKIMKKSGDDVKMI-----SGEAPIVF-SKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATDI-F 92 (102)
Q Consensus 20 ~~~lP~srVkrImK~~d~~~~~i-----s~eA~~~l-~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~-~ 92 (102)
.+.++-+.++-+++ ..+--+.| .+.+...+ -.+.---+..+-.+-|..-...++|-|+|.++..-|..+.+ .
T Consensus 33 aLGlS~~qa~~~Ly-vLErEG~VkrV~~G~~tyw~l~~day~~~v~~~~Relwrlv~s~~~kfi~p~~l~~li~kd~~a~ 111 (165)
T PHA02943 33 KLGVSHSMARNALY-QLAKEGMVLKVEIGRAAIWCLDEDAYTNLVFEIKRELWRLVCNSRLKFITPSRLLRLIAKDTEAH 111 (165)
T ss_pred HHCCCHHHHHHHHH-HHHHcCceEEEeecceEEEEEChHHHHHHHHHHHHHHHHHHHhccccccChHHHHHHHHhCHHHH
Confidence 45666777777777 43321222 21111111 12222237788888888888999999999999999988765 6
Q ss_pred hhhhhhcc
Q 047870 93 DFLLTLVS 100 (102)
Q Consensus 93 ~FL~d~vp 100 (102)
.|...+||
T Consensus 112 ~~~ak~v~ 119 (165)
T PHA02943 112 NIFAKYVP 119 (165)
T ss_pred HHHHHhcC
Confidence 67777766
No 125
>PRK07914 hypothetical protein; Reviewed
Probab=28.39 E-value=1.7e+02 Score=22.07 Aligned_cols=52 Identities=8% Similarity=-0.022 Sum_probs=32.8
Q ss_pred ccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCch
Q 047870 40 KMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATDIF 92 (102)
Q Consensus 40 ~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~~ 92 (102)
..++.+|..++...++-=+..+.++--..+-..+ ..|+.+||...+....++
T Consensus 146 ~~i~~~A~~~L~~~~g~dl~~l~~EleKL~~~~~-~~It~e~V~~~v~~~~~~ 197 (320)
T PRK07914 146 VKVDDDTVTALLDAVGSDLRELASACSQLVADTG-GAVDAAAVRRYHSGKAEV 197 (320)
T ss_pred CCCCHHHHHHHHHHHCccHHHHHHHHHHHhcCCC-CCcCHHHHHHHcCCCeec
Confidence 4789998888877764322333333222222233 569999999999876653
No 126
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=26.24 E-value=1.9e+02 Score=21.29 Aligned_cols=47 Identities=4% Similarity=-0.173 Sum_probs=28.2
Q ss_pred ccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhc
Q 047870 40 KMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIA 88 (102)
Q Consensus 40 ~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~ 88 (102)
..++.++...+...+.-=+..+.......+ .+..+|+.+||..++..
T Consensus 202 ~~~~~~al~~l~~~~~gdlr~l~~~l~~~~--~~~~~It~~~v~~~~~~ 248 (337)
T PRK12402 202 VDYDDDGLELIAYYAGGDLRKAILTLQTAA--LAAGEITMEAAYEALGD 248 (337)
T ss_pred CCCCHHHHHHHHHHcCCCHHHHHHHHHHHH--HcCCCCCHHHHHHHhCC
Confidence 358888888887765322223332222222 22347999999998875
No 127
>CHL00176 ftsH cell division protein; Validated
Probab=26.03 E-value=1e+02 Score=26.26 Aligned_cols=31 Identities=16% Similarity=0.282 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHhhCCCCeecHHHHHHHHhc
Q 047870 58 IEELTKRSWTMTMQGKRRTLLKDDVASAVIA 88 (102)
Q Consensus 58 i~~l~~~A~~~a~~~~rktI~~~di~~av~~ 88 (102)
+..++++|...+.+.+++.|+.+|+..|+.+
T Consensus 392 L~~lvneAal~a~r~~~~~It~~dl~~Ai~r 422 (638)
T CHL00176 392 LANLLNEAAILTARRKKATITMKEIDTAIDR 422 (638)
T ss_pred HHHHHHHHHHHHHHhCCCCcCHHHHHHHHHH
Confidence 5677788877778889999999999999875
No 128
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=25.96 E-value=2.6e+02 Score=24.39 Aligned_cols=57 Identities=12% Similarity=0.153 Sum_probs=36.6
Q ss_pred HHHHHhhhcCCCcccccccHHHHHHHHHH---HHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCC
Q 047870 27 RIKKIMKKSGDDVKMISGEAPIVFSKACE---LFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATD 90 (102)
Q Consensus 27 rVkrImK~~d~~~~~is~eA~~~l~ka~E---~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~ 90 (102)
++++|++ .+...++.++..+|.+.+. ..+..++..+... +...|+.+||...+...+
T Consensus 186 ~L~~Il~---kEgi~id~eAL~~Ia~~A~GslRdAlnLLDqaia~----g~g~It~e~V~~lLG~~d 245 (709)
T PRK08691 186 HLAHVLD---SEKIAYEPPALQLLGRAAAGSMRDALSLLDQAIAL----GSGKVAENDVRQMIGAVD 245 (709)
T ss_pred HHHHHHH---HcCCCcCHHHHHHHHHHhCCCHHHHHHHHHHHHHh----cCCCcCHHHHHHHHcccC
Confidence 3445555 2335688899999988876 3444444444433 345689999988876655
No 129
>PF08989 DUF1896: Domain of unknown function (DUF1896); InterPro: IPR015082 This domain is found in a set of hypothetical bacterial proteins. ; PDB: 2APL_A.
Probab=25.50 E-value=2.3e+02 Score=19.71 Aligned_cols=63 Identities=11% Similarity=0.273 Sum_probs=42.2
Q ss_pred HHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCC----chhhhhhhc
Q 047870 28 IKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATD----IFDFLLTLV 99 (102)
Q Consensus 28 VkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~----~~~FL~d~v 99 (102)
...-+++..|+ ...+..++-.+| +.+..++..|...|.-....+.++..+--.+ .|++|.++|
T Consensus 15 L~~yL~e~hPe---~~~d~~fI~~Ra------d~Aa~aYe~A~~~G~~~~~A~e~A~~vL~~GLhFSkydtl~~Vl 81 (144)
T PF08989_consen 15 LLSYLRESHPE---RAGDTEFIEERA------DMAAEAYEQAVRSGYSHDEAEEIAMEVLYQGLHFSKYDTLREVL 81 (144)
T ss_dssp HHHHHHHH-GG---GTT-HHHHHHHH------HHHHHHHHHHHHHT--HHHHHHHHHHHHHTT-S--HHHHHHHHH
T ss_pred HHHHHHhcCch---hccchHHHHHHH------HHHHHHHHHHHHcCCCHHHHHHHHHHHHHcccccchhHHHHHHH
Confidence 34456655554 455666666676 7788899999999999999999988886433 577777665
No 130
>KOG0480 consensus DNA replication licensing factor, MCM6 component [Replication, recombination and repair]
Probab=25.02 E-value=3.5e+02 Score=23.74 Aligned_cols=67 Identities=21% Similarity=0.182 Sum_probs=49.4
Q ss_pred CCCCHHHHHHHhhhcCCCcccccccHHHHHHHHHHHHH-------------------HHHHHHHHHHHhhCCCCeecHHH
Q 047870 21 HSLPLARIKKIMKKSGDDVKMISGEAPIVFSKACELFI-------------------EELTKRSWTMTMQGKRRTLLKDD 81 (102)
Q Consensus 21 ~~lP~srVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi-------------------~~l~~~A~~~a~~~~rktI~~~d 81 (102)
..+|+..|+|-++=+-.-..++|+||...+.+-...|- +-|..-+-..|+-+.|..++++|
T Consensus 556 ~~~~~e~vrkYi~yAR~~~P~ls~ea~~~lve~Y~~lR~~~~~~~~~~s~~ITvRqLESlIRLsEA~Ar~~~~devt~~~ 635 (764)
T KOG0480|consen 556 CVYTLEQVRKYIRYARNFKPKLSKEASEMLVEKYKGLRQRDAQGNNRSSYRITVRQLESLIRLSEARARVECRDEVTKED 635 (764)
T ss_pred ccccHHHHHHHHHHHHhcCccccHHHHHHHHHHHHHHHHhhccccCcccccccHHHHHHHHHHHHHHHhhhhhhhccHHH
Confidence 58999999999883333345899999988877655553 33444555567778899999999
Q ss_pred HHHHHh
Q 047870 82 VASAVI 87 (102)
Q Consensus 82 i~~av~ 87 (102)
+..|++
T Consensus 636 v~ea~e 641 (764)
T KOG0480|consen 636 VEEAVE 641 (764)
T ss_pred HHHHHH
Confidence 998875
No 131
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=24.68 E-value=2.1e+02 Score=23.63 Aligned_cols=61 Identities=11% Similarity=0.033 Sum_probs=36.9
Q ss_pred HHHHHhhhcCCCcccccccHHHHHHHHHHHHH---HHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCc
Q 047870 27 RIKKIMKKSGDDVKMISGEAPIVFSKACELFI---EELTKRSWTMTMQGKRRTLLKDDVASAVIATDI 91 (102)
Q Consensus 27 rVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi---~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~ 91 (102)
.++++++ .+...++.+|..++...++-=+ ..+++.+...+.. ....|+.+||...+.....
T Consensus 195 ~L~~i~~---~egi~ie~eAL~~Ia~~s~GslR~al~~Ldkai~~~~~-~~~~It~~~V~~llg~~~~ 258 (507)
T PRK06645 195 LLEYITK---QENLKTDIEALRIIAYKSEGSARDAVSILDQAASMSAK-SDNIISPQVINQMLGLVDS 258 (507)
T ss_pred HHHHHHH---HcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhcc-CCCCcCHHHHHHHHCCCCH
Confidence 4555555 2335688899888888765322 2333344333321 2447999999998866553
No 132
>PRK05629 hypothetical protein; Validated
Probab=24.10 E-value=3e+02 Score=20.63 Aligned_cols=53 Identities=6% Similarity=-0.031 Sum_probs=30.9
Q ss_pred CcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCCc
Q 047870 38 DVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATDI 91 (102)
Q Consensus 38 ~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~~ 91 (102)
....++.+|...+...++-=+..+.++--..+... ..+|+.+||...+.....
T Consensus 142 ~g~~i~~~A~~~L~~~~g~dl~~l~~EleKL~~~~-~~~It~e~V~~~v~~~~~ 194 (318)
T PRK05629 142 HGVRPTPDVVHALLEGVGSDLRELASAISQLVEDT-QGNVTVEKVRAYYVGVAE 194 (318)
T ss_pred cCCCCCHHHHHHHHHHHCccHHHHHHHHHHHHhcC-CCCcCHHHHHHHhCCCcc
Confidence 34578999887776654422222222222222222 346999999999876553
No 133
>PF05788 Orbi_VP1: Orbivirus RNA-dependent RNA polymerase (VP1); InterPro: IPR008723 This family consists of the RNA-dependent RNA polymerase protein VP1 from the Orbivirus. VP1 may have both enzymatic and structural roles in the virus life cycle [].; GO: 0003723 RNA binding, 0003968 RNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=23.93 E-value=1.5e+02 Score=27.34 Aligned_cols=41 Identities=5% Similarity=0.173 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHh
Q 047870 46 APIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVI 87 (102)
Q Consensus 46 A~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~ 87 (102)
.--++++.+++=-.++. .||+.|+++|...|.|+|+-..+-
T Consensus 398 ~~N~i~rV~~~T~~~f~-~AY~EA~~~g~~IV~PEdmYtSlL 438 (1301)
T PF05788_consen 398 KDNLISRVSDYTENNFI-QAYEEAREHGEEIVKPEDMYTSLL 438 (1301)
T ss_pred cccHHHHHHHHHHHHHH-HHHHHHHhccCCcCChHHHHHHHH
Confidence 33456666665433333 699999999999999999988874
No 134
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=23.65 E-value=1.8e+02 Score=24.05 Aligned_cols=56 Identities=9% Similarity=0.003 Sum_probs=33.9
Q ss_pred HHHHHHhhhcCCCcccccccHHHHHHHHHHH---HHHHHHHHHHHHHhhCCCCeecHHHHHHHHhc
Q 047870 26 ARIKKIMKKSGDDVKMISGEAPIVFSKACEL---FIEELTKRSWTMTMQGKRRTLLKDDVASAVIA 88 (102)
Q Consensus 26 srVkrImK~~d~~~~~is~eA~~~l~ka~E~---Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~ 88 (102)
.++++|++ .+...++.+|..++.+.++- -+..+.+.+... .+ .+|+.+||...+..
T Consensus 182 ~~L~~ia~---~Egi~i~~eAL~lIa~~s~GslR~alslLdqli~y---~~-~~It~e~V~~llg~ 240 (491)
T PRK14964 182 EHLVDIAK---KENIEHDEESLKLIAENSSGSMRNALFLLEQAAIY---SN-NKISEKSVRDLLGC 240 (491)
T ss_pred HHHHHHHH---HcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh---cC-CCCCHHHHHHHHcc
Confidence 35555555 33457899999998887652 222333333322 23 47999999887543
No 135
>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria. Unlike subunit I (TIGR02030), this subunit is not found in archaea.
Probab=23.35 E-value=4.5e+02 Score=22.03 Aligned_cols=47 Identities=21% Similarity=0.082 Sum_probs=31.7
Q ss_pred cccccHHHHHHH-HHHHHH------HHHHHHHHHHHhhCCCCeecHHHHHHHHh
Q 047870 41 MISGEAPIVFSK-ACELFI------EELTKRSWTMTMQGKRRTLLKDDVASAVI 87 (102)
Q Consensus 41 ~is~eA~~~l~k-a~E~Fi------~~l~~~A~~~a~~~~rktI~~~di~~av~ 87 (102)
.|+.+....+.. +.++-+ ..++..|-..|.-++|..|+++||..++.
T Consensus 203 ~i~~~~~~~l~~~~~~~gv~s~Ra~i~~~r~ArA~Aal~gr~~V~~~Dv~~a~~ 256 (589)
T TIGR02031 203 TISAEQVKELVLTAASLGISGHRADLFAVRAAKAHAALHGRTEVTEEDLKLAVE 256 (589)
T ss_pred cCCHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Confidence 567776644433 333322 24556666677789999999999999875
No 136
>PRK02234 recU Holliday junction-specific endonuclease; Reviewed
Probab=22.99 E-value=94 Score=22.56 Aligned_cols=33 Identities=15% Similarity=0.357 Sum_probs=22.0
Q ss_pred HHHHHHhhCCCCeecHHHHHH-HH----hcCCchhhhh
Q 047870 64 RSWTMTMQGKRRTLLKDDVAS-AV----IATDIFDFLL 96 (102)
Q Consensus 64 ~A~~~a~~~~rktI~~~di~~-av----~~~~~~~FL~ 96 (102)
.-|+..+..|||+|.++++.+ .. ...+.++||.
T Consensus 150 ~~w~~~~~~grKSI~~e~i~~~~~~i~~~~~~~idyL~ 187 (195)
T PRK02234 150 KFWERQKDGGRKSIPLEEIKKNGYEIPLGYPPRIDYLK 187 (195)
T ss_pred HHHHHHHhCCCCcccHHHHHHcCEEeccCCCCccChHH
Confidence 345555788999999999976 33 2233455554
No 137
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=22.75 E-value=3.3e+02 Score=21.34 Aligned_cols=52 Identities=10% Similarity=0.081 Sum_probs=31.3
Q ss_pred ccccccHHHHHHHHHHH---HHHHHHHHHHHHHh-hCCCCeecHHHHHHHHhcCCc
Q 047870 40 KMISGEAPIVFSKACEL---FIEELTKRSWTMTM-QGKRRTLLKDDVASAVIATDI 91 (102)
Q Consensus 40 ~~is~eA~~~l~ka~E~---Fi~~l~~~A~~~a~-~~~rktI~~~di~~av~~~~~ 91 (102)
..++.++..++...+.- -+..+.++....+. ....++|+.+||.+.+.....
T Consensus 204 ~~i~~~al~~l~~~s~g~lr~a~~~L~kl~~~~~~~~~~~~It~~~v~~~v~~~~~ 259 (397)
T PRK14955 204 ISVDADALQLIGRKAQGSMRDAQSILDQVIAFSVESEGEGSIRYDKVAELLNYIDD 259 (397)
T ss_pred CCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccccCCCCccCHHHHHHHHCCCCH
Confidence 45888888777665542 23333333333332 245679999999888855443
No 138
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=22.67 E-value=2.2e+02 Score=24.08 Aligned_cols=60 Identities=12% Similarity=0.066 Sum_probs=34.6
Q ss_pred HHHHHhhhcCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHhcCC
Q 047870 27 RIKKIMKKSGDDVKMISGEAPIVFSKACELFIEELTKRSWTMTMQGKRRTLLKDDVASAVIATD 90 (102)
Q Consensus 27 rVkrImK~~d~~~~~is~eA~~~l~ka~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~~~~ 90 (102)
.++++++ .+...++.++..++...++-=+..+....-+.... +.+.|+.+||...+....
T Consensus 199 ~L~~i~~---kegi~i~~eAl~lIa~~a~Gdlr~al~~Ldkli~~-g~g~It~e~V~~llg~~~ 258 (598)
T PRK09111 199 HLSRIAA---KEGVEVEDEALALIARAAEGSVRDGLSLLDQAIAH-GAGEVTAEAVRDMLGLAD 258 (598)
T ss_pred HHHHHHH---HcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhh-cCCCcCHHHHHHHhCCCC
Confidence 4455555 23356888998888887663333222222111112 345799999999886443
No 139
>PF05066 HARE-HTH: HB1, ASXL, restriction endonuclease HTH domain; InterPro: IPR007759 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. The delta protein is a dispensable subunit of Bacillus subtilis RNA polymerase (RNAP) that has major effects on the biochemical properties of the purified enzyme. In the presence of delta, RNAP displays an increased specificity of transcription, a decreased affinity for nucleic acids, and an increased efficiency of RNA synthesis because of enhanced recycling []. The delta protein, contains two distinct regions, an N-terminal domain and a glutamate and aspartate residue-rich C-terminal region [].; GO: 0003677 DNA binding, 0006351 transcription, DNA-dependent; PDB: 2KRC_A.
Probab=22.28 E-value=71 Score=18.68 Aligned_cols=33 Identities=3% Similarity=0.156 Sum_probs=19.7
Q ss_pred HHHHHHHHhhCCCCeecHHHHHHHHhcCCchhhh
Q 047870 62 TKRSWTMTMQGKRRTLLKDDVASAVIATDIFDFL 95 (102)
Q Consensus 62 ~~~A~~~a~~~~rktI~~~di~~av~~~~~~~FL 95 (102)
.+.|+++-++.+ +-++++||.+.+.+..-+++.
T Consensus 4 ~eaa~~vL~~~~-~pm~~~eI~~~i~~~~~~~~~ 36 (72)
T PF05066_consen 4 KEAAYEVLEEAG-RPMTFKEIWEEIQERGLYKKS 36 (72)
T ss_dssp HHHHHHHHHHH--S-EEHHHHHHHHHHHHTS---
T ss_pred HHHHHHHHHhcC-CCcCHHHHHHHHHHhCCCCcc
Confidence 344555555555 888999999888876666654
No 140
>COG0473 LeuB Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]
Probab=21.92 E-value=56 Score=25.90 Aligned_cols=34 Identities=9% Similarity=0.104 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHHHhhCCCCeecHHHHHHHHh
Q 047870 54 CELFIEELTKRSWTMTMQGKRRTLLKDDVASAVI 87 (102)
Q Consensus 54 ~E~Fi~~l~~~A~~~a~~~~rktI~~~di~~av~ 87 (102)
++.=++.+++-|++.|++++||+|+.=|=+++++
T Consensus 154 Tr~~~eRI~r~AFe~A~~R~~kkvTsv~KaNVl~ 187 (348)
T COG0473 154 TRKGSERIARFAFELARKRGRKKVTSVHKANVLK 187 (348)
T ss_pred cHHHHHHHHHHHHHHHHhhCCCceEEEehhhhhh
Confidence 3334567888899999988888888877777777
No 141
>PF10657 RC-P840_PscD: Photosystem P840 reaction centre protein PscD; InterPro: IPR019608 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. The photosynthetic reaction centres (RCs) of aerotolerant organisms contain a heterodimeric core, built up of two strongly homologous polypeptides each of which contributes five transmembrane peptide helices to hold a pseudo-symmetric double set of redox components. Two molecules of PscD are housed within a subunit. PscD may be involved in stabilising the PscB component since it is found to co-precipitate with FMO (Fenna-Mathews-Olson BChl a-protein) and PscB. It may also be involved in the interaction with ferredoxin [].
Probab=21.86 E-value=35 Score=23.35 Aligned_cols=10 Identities=30% Similarity=0.517 Sum_probs=7.4
Q ss_pred ccccchhhhh
Q 047870 3 QAGTYSGLLS 12 (102)
Q Consensus 3 ~~~~~~~~~~ 12 (102)
.+|||||-+-
T Consensus 19 ~sgpWsGNa~ 28 (144)
T PF10657_consen 19 TSGPWSGNAV 28 (144)
T ss_pred ccCCccCchh
Confidence 5899988543
No 142
>PRK02858 germination protease; Provisional
Probab=21.80 E-value=68 Score=25.64 Aligned_cols=51 Identities=10% Similarity=0.250 Sum_probs=34.9
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHh-----------hCCCCeecHHHHHHHHhcCCchhhh
Q 047870 45 EAPIVFSKACELFIEELTKRSWTMTM-----------QGKRRTLLKDDVASAVIATDIFDFL 95 (102)
Q Consensus 45 eA~~~l~ka~E~Fi~~l~~~A~~~a~-----------~~~rktI~~~di~~av~~~~~~~FL 95 (102)
+|..++.-+.++++..|.++..+... -.++|.++++|+-+--++..+|..+
T Consensus 245 dA~tI~~Dtid~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~lt~~~~~~~~~~~~~~~~~ 306 (369)
T PRK02858 245 DAVTITSDTIDFILKHFGREMKEGNKPSRSLLPAGMTFGEKKKLTEEDLPDEKSRNTFLGMV 306 (369)
T ss_pred chHHHHHHHHHHHHHHHhhhhcccccccccccccccccccccccccccccchhhhhhhhhhh
Confidence 58888899999999999876654222 2567788888876555554444443
No 143
>PF10035 DUF2179: Uncharacterized protein conserved in bacteria (DUF2179); InterPro: IPR019264 This entry, found mostly in hypothetical bacterial proteins, has no known function. ; PDB: 3HLU_B.
Probab=21.62 E-value=71 Score=17.68 Aligned_cols=18 Identities=28% Similarity=0.445 Sum_probs=12.4
Q ss_pred CHHHHHHHhhhcCCCccc
Q 047870 24 PLARIKKIMKKSGDDVKM 41 (102)
Q Consensus 24 P~srVkrImK~~d~~~~~ 41 (102)
-+.++++++++.||+.=.
T Consensus 28 e~~~l~~~I~~~Dp~AFi 45 (55)
T PF10035_consen 28 ELPKLKKIIKEIDPKAFI 45 (55)
T ss_dssp HHHHHHHHHHCC-TT-EE
T ss_pred HHHHHHHHHHHhCCCEEE
Confidence 467899999988887433
No 144
>PF02092 tRNA_synt_2f: Glycyl-tRNA synthetase beta subunit; InterPro: IPR015944 The aminoacyl-tRNA synthetases (6.1.1 from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold and are mostly monomeric, while class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet formation, flanked by alpha-helices [], and are mostly dimeric or multimeric. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic aci, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. The 10 class I synthetases are considered to have in common the catalytic domain structure based on the Rossmann fold, which is totally different from the class II catalytic domain structure. The class I synthetases are further divided into three subclasses, a, b and c, according to sequence homology. No conserved structural features for tRNA recognition by class I synthetases have been established. Class-II tRNA synthetases do not share a high degree of similarity, however at least three conserved regions are present [, , ]. In most eubacteria, glycyl-tRNA synthetase (6.1.1.14 from EC) is an alpha2/beta2 tetramer composed of 2 different subunits [, , ] while in archaea, eukaryota and some eubacteria, glycyl-tRNA synthetase is an alpha2 dimer (see IPR002315 from INTERPRO). This entry represents the beta subunit of the tetrameric enzyme. What is most interesting is the lack of similarity between the two types: divergence at the sequence level is so great that it is impossible to infer descent from common genes. The alpha (see IPR002310 from INTERPRO) and beta subunits also lack significant sequence similarity. However, they are translated from a single mRNA [], and a single chain glycyl-tRNA synthetase from Chlamydia trachomatis has been found to have significant similarity with both domains, suggesting divergence from a single polypeptide chain []. This entry represents the beta subunit of glycyl-tRNA synthetase.; GO: 0000166 nucleotide binding, 0004820 glycine-tRNA ligase activity, 0005524 ATP binding, 0006426 glycyl-tRNA aminoacylation, 0005737 cytoplasm
Probab=20.29 E-value=2.7e+02 Score=23.40 Aligned_cols=55 Identities=15% Similarity=0.079 Sum_probs=40.7
Q ss_pred ccHHHHHHHHHHHHHHHHHH------------HHHHHHhhCCCCeecHHHHHHHHhcCCchhhhhhhccCC
Q 047870 44 GEAPIVFSKACELFIEELTK------------RSWTMTMQGKRRTLLKDDVASAVIATDIFDFLLTLVSES 102 (102)
Q Consensus 44 ~eA~~~l~ka~E~Fi~~l~~------------~A~~~a~~~~rktI~~~di~~av~~~~~~~FL~d~vp~~ 102 (102)
.+....+.+|+.+-=.+|+. .....|..+|. .++|+.||.++-.-.|-.|.+|.|
T Consensus 375 ~~~~~~~~rAa~L~KaDL~T~mV~EFPELQGiMG~~YA~~~GE----~~~VA~AI~EhY~P~~~~d~lP~t 441 (548)
T PF02092_consen 375 EEDKEDAERAALLCKADLVTNMVGEFPELQGIMGRYYALADGE----SEEVALAIEEHYLPRFAGDELPST 441 (548)
T ss_pred hhhHHHHHHHHHHHHHhhhhcccccChHHHHHHHHHHHHHCCC----chHHHHHHHHHhCCCCCCCCCCCC
Confidence 55566677777765555544 34556777777 689999999998889999999976
No 145
>PF10772 DUF2597: Protein of unknown function (DUF2597); InterPro: IPR019708 This entry is represented by Bacteriophage HP1, Orf24. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry represents proteins with unknown function and is restricted to Proteobacteria. One of the proteins is annotated to a predictive tail tube protein.
Probab=20.05 E-value=35 Score=23.43 Aligned_cols=10 Identities=30% Similarity=0.813 Sum_probs=8.2
Q ss_pred cccccchhhh
Q 047870 2 RQAGTYSGLL 11 (102)
Q Consensus 2 ~~~~~~~~~~ 11 (102)
|.||+|+|+-
T Consensus 63 ~~AGSwR~i~ 72 (134)
T PF10772_consen 63 KSAGSWRGIP 72 (134)
T ss_pred HhcCCccCCC
Confidence 5799999875
Done!