Query 038850
Match_columns 78
No_of_seqs 111 out of 713
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 03:55:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038850.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038850hhsearch_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 1.9E-24 4.1E-29 125.6 6.2 63 16-78 2-64 (65)
2 COG5208 HAP5 CCAAT-binding fac 99.8 6E-20 1.3E-24 129.4 3.2 74 5-78 97-171 (286)
3 KOG1657 CCAAT-binding factor, 99.8 1.2E-19 2.6E-24 128.5 4.0 72 7-78 65-136 (236)
4 KOG1659 Class 2 transcription 99.7 5.7E-18 1.2E-22 118.2 4.6 70 9-78 6-75 (224)
5 COG5247 BUR6 Class 2 transcrip 99.7 1.8E-17 4E-22 104.7 3.7 70 9-78 16-85 (113)
6 cd00074 H2A Histone 2A; H2A is 99.3 4E-12 8.7E-17 81.8 6.6 68 11-78 15-82 (115)
7 KOG1658 DNA polymerase epsilon 99.3 1.3E-12 2.7E-17 87.8 3.0 67 12-78 55-121 (162)
8 COG2036 HHT1 Histones H3 and H 99.3 5.6E-12 1.2E-16 78.3 4.9 65 13-78 16-80 (91)
9 KOG0869 CCAAT-binding factor, 99.3 8.8E-12 1.9E-16 84.0 5.4 70 9-78 25-95 (168)
10 COG5262 HTA1 Histone H2A [Chro 99.2 1.9E-11 4.2E-16 79.2 5.2 68 11-78 21-88 (132)
11 KOG0870 DNA polymerase epsilon 99.2 3.4E-11 7.4E-16 81.6 5.1 66 13-78 7-74 (172)
12 smart00803 TAF TATA box bindin 99.2 1.6E-10 3.5E-15 67.7 6.3 62 16-78 2-63 (65)
13 smart00414 H2A Histone 2A. 99.2 1.7E-10 3.7E-15 73.4 6.9 68 11-78 4-71 (106)
14 PF00125 Histone: Core histone 99.1 2.5E-10 5.4E-15 67.1 4.6 66 13-78 5-71 (75)
15 PTZ00017 histone H2A; Provisio 99.0 5.4E-10 1.2E-14 73.7 6.1 67 12-78 23-89 (134)
16 PLN00154 histone H2A; Provisio 99.0 7.5E-10 1.6E-14 73.1 6.5 67 12-78 34-101 (136)
17 smart00417 H4 Histone H4. 99.0 2.4E-09 5.1E-14 64.4 6.6 62 16-78 13-74 (74)
18 cd00076 H4 Histone H4, one of 99.0 2.6E-09 5.5E-14 65.7 6.2 62 16-78 13-74 (85)
19 PLN00153 histone H2A; Provisio 98.9 2.6E-09 5.5E-14 70.1 6.2 67 12-78 20-86 (129)
20 PLN00156 histone H2AX; Provisi 98.9 3E-09 6.5E-14 70.5 6.4 67 12-78 25-91 (139)
21 PLN00157 histone H2A; Provisio 98.9 3E-09 6.6E-14 70.0 6.3 67 12-78 22-88 (132)
22 PLN00035 histone H4; Provision 98.9 3.9E-09 8.5E-14 66.9 6.2 62 16-78 29-90 (103)
23 KOG1756 Histone 2A [Chromatin 98.9 3.4E-09 7.4E-14 69.3 5.1 68 11-78 22-89 (131)
24 PTZ00015 histone H4; Provision 98.9 9E-09 2E-13 65.2 6.2 63 15-78 29-91 (102)
25 KOG0871 Class 2 transcription 98.8 8.7E-09 1.9E-13 69.0 5.9 64 14-78 10-75 (156)
26 PTZ00252 histone H2A; Provisio 98.8 2E-08 4.2E-13 66.2 6.6 67 12-78 21-89 (134)
27 cd07981 TAF12 TATA Binding Pro 98.6 3.2E-07 6.9E-12 54.4 6.4 60 17-77 2-62 (72)
28 smart00428 H3 Histone H3. 98.5 5.7E-07 1.2E-11 57.2 6.3 66 12-78 28-97 (105)
29 cd08048 TAF11 TATA Binding Pro 98.4 7.9E-07 1.7E-11 54.5 5.9 64 14-78 14-80 (85)
30 COG5150 Class 2 transcription 98.2 5.1E-06 1.1E-10 54.8 5.4 66 13-78 8-74 (148)
31 KOG1757 Histone 2A [Chromatin 98.1 4.2E-06 9.1E-11 54.1 4.5 67 12-78 26-93 (131)
32 PF02969 TAF: TATA box binding 98.1 1.4E-05 3E-10 47.0 6.0 62 16-78 3-64 (66)
33 cd08050 TAF6 TATA Binding Prot 98.0 2E-05 4.3E-10 58.3 6.1 60 18-78 1-60 (343)
34 PLN00121 histone H3; Provision 98.0 2.2E-05 4.9E-10 51.9 5.6 65 12-77 61-127 (136)
35 PF04719 TAFII28: hTAFII28-lik 98.0 1.8E-05 3.9E-10 49.1 4.7 65 14-78 21-86 (90)
36 smart00576 BTP Bromodomain tra 98.0 3.6E-05 7.9E-10 45.8 5.9 56 22-78 12-67 (77)
37 PLN00160 histone H3; Provision 98.0 2.8E-05 6E-10 48.9 5.5 65 13-77 21-87 (97)
38 PTZ00018 histone H3; Provision 97.9 2.7E-05 5.9E-10 51.5 5.6 65 12-77 61-127 (136)
39 PLN00161 histone H3; Provision 97.9 4.6E-05 1E-09 50.4 6.0 67 11-77 53-121 (135)
40 PF15510 CENP-W: Centromere ki 97.9 1.6E-05 3.4E-10 49.8 3.5 65 14-78 14-92 (102)
41 cd07979 TAF9 TATA Binding Prot 97.8 0.00011 2.4E-09 47.2 5.9 58 20-78 5-62 (117)
42 PF15511 CENP-T: Centromere ki 97.7 7.2E-05 1.6E-09 56.7 5.4 61 14-74 349-414 (414)
43 PF09415 CENP-X: CENP-S associ 97.6 0.00025 5.4E-09 42.3 5.1 60 18-77 1-63 (72)
44 smart00427 H2B Histone H2B. 97.5 0.00036 7.9E-09 43.2 5.7 57 21-78 6-63 (89)
45 KOG1658 DNA polymerase epsilon 97.3 0.00026 5.6E-09 47.9 3.6 49 8-56 3-51 (162)
46 PLN00158 histone H2B; Provisio 97.2 0.0013 2.8E-08 42.6 5.9 59 19-78 30-89 (116)
47 PTZ00463 histone H2B; Provisio 97.2 0.0016 3.4E-08 42.2 6.1 57 21-78 33-90 (117)
48 KOG1745 Histones H3 and H4 [Ch 97.1 0.00069 1.5E-08 45.0 3.9 64 15-78 65-129 (137)
49 PF02269 TFIID-18kDa: Transcri 97.1 0.00078 1.7E-08 41.7 3.8 55 22-76 7-61 (93)
50 KOG3219 Transcription initiati 97.1 0.00038 8.2E-09 48.5 2.6 65 13-78 109-174 (195)
51 PLN00155 histone H2A; Provisio 97.0 0.001 2.3E-08 38.3 3.1 38 12-49 20-57 (58)
52 PF03847 TFIID_20kDa: Transcri 97.0 0.0058 1.3E-07 35.9 6.3 56 20-76 3-59 (68)
53 KOG1744 Histone H2B [Chromatin 96.5 0.0082 1.8E-07 39.4 5.3 56 22-78 43-99 (127)
54 PF15630 CENP-S: Kinetochore c 96.5 0.018 3.8E-07 34.6 6.3 55 22-76 11-67 (76)
55 cd07978 TAF13 The TATA Binding 96.4 0.019 4E-07 35.6 6.2 56 20-76 6-61 (92)
56 PF07524 Bromo_TP: Bromodomain 96.3 0.022 4.8E-07 33.4 5.9 56 22-78 12-67 (77)
57 KOG3467 Histone H4 [Chromatin 95.8 0.036 7.8E-07 34.6 5.3 55 21-76 34-88 (103)
58 KOG2549 Transcription initiati 95.0 0.073 1.6E-06 42.3 5.9 59 19-78 14-72 (576)
59 KOG1142 Transcription initiati 94.4 0.21 4.5E-06 36.3 6.4 62 14-76 152-214 (258)
60 PF03540 TFIID_30kDa: Transcri 93.9 0.59 1.3E-05 26.1 6.4 48 16-64 2-49 (51)
61 PF05236 TAF4: Transcription i 93.5 0.18 3.9E-06 36.0 4.7 45 20-65 51-95 (264)
62 COG5095 TAF6 Transcription ini 93.3 0.13 2.9E-06 38.9 4.0 58 20-78 9-66 (450)
63 KOG3423 Transcription initiati 93.3 0.47 1E-05 32.7 6.2 69 9-78 79-161 (176)
64 cd08045 TAF4 TATA Binding Prot 91.3 0.94 2E-05 31.3 6.0 50 15-65 43-96 (212)
65 PF02291 TFIID-31kDa: Transcri 90.6 1.2 2.5E-05 29.2 5.6 57 21-78 17-73 (129)
66 PF10979 DUF2786: Protein of u 85.0 2.3 5E-05 22.7 3.7 35 19-53 4-38 (43)
67 PF12767 SAGA-Tad1: Transcript 80.2 5.4 0.00012 28.2 5.1 31 31-61 220-250 (252)
68 KOG2389 Predicted bromodomain 77.3 6.8 0.00015 29.7 5.0 62 16-78 29-90 (353)
69 KOG4336 TBP-associated transcr 74.1 13 0.00029 27.9 5.8 59 19-77 7-65 (323)
70 TIGR03015 pepcterm_ATPase puta 69.6 6.5 0.00014 26.9 3.2 45 34-78 215-262 (269)
71 PRK00411 cdc6 cell division co 67.7 22 0.00048 25.9 5.8 60 19-78 209-278 (394)
72 PF13335 Mg_chelatase_2: Magne 67.5 7.2 0.00016 23.9 2.8 60 12-78 27-92 (96)
73 PF08369 PCP_red: Proto-chloro 67.2 5.7 0.00012 21.3 2.0 29 50-78 15-44 (45)
74 TIGR00764 lon_rel lon-related 64.3 26 0.00057 28.0 6.0 59 20-78 316-387 (608)
75 TIGR02928 orc1/cdc6 family rep 58.5 49 0.0011 23.7 6.1 45 34-78 220-270 (365)
76 COG5248 TAF19 Transcription in 57.3 51 0.0011 21.4 5.6 58 16-75 9-66 (126)
77 COG1224 TIP49 DNA helicase TIP 56.5 24 0.00051 27.6 4.3 63 16-78 360-428 (450)
78 KOG2680 DNA helicase TIP49, TB 53.2 36 0.00079 26.2 4.8 58 21-78 362-425 (454)
79 COG5162 Transcription initiati 50.7 83 0.0018 21.9 7.0 54 9-63 81-134 (197)
80 PF13654 AAA_32: AAA domain; P 49.8 14 0.0003 29.1 2.2 57 21-78 435-502 (509)
81 COG1474 CDC6 Cdc6-related prot 48.0 30 0.00065 26.0 3.7 59 20-78 193-261 (366)
82 PF09123 DUF1931: Domain of un 46.6 18 0.00039 24.1 2.1 52 23-75 2-53 (138)
83 PRK03992 proteasome-activating 44.6 21 0.00045 26.7 2.4 29 50-78 340-368 (389)
84 TIGR01242 26Sp45 26S proteasom 44.4 20 0.00044 26.2 2.3 28 51-78 332-359 (364)
85 PTZ00361 26 proteosome regulat 42.5 22 0.00047 27.5 2.3 28 51-78 393-420 (438)
86 PTZ00454 26S protease regulato 41.4 24 0.00052 26.8 2.3 28 51-78 355-382 (398)
87 KOG3901 Transcription initiati 39.3 1E+02 0.0022 19.7 5.5 52 22-76 15-66 (109)
88 TIGR01848 PHA_reg_PhaR polyhyd 38.4 91 0.002 19.9 4.3 40 12-53 61-100 (107)
89 PRK13765 ATP-dependent proteas 37.8 87 0.0019 25.5 5.1 47 32-78 337-396 (637)
90 TIGR00368 Mg chelatase-related 36.5 68 0.0015 25.2 4.2 58 14-78 432-495 (499)
91 COG5251 TAF40 Transcription in 36.3 28 0.00061 24.3 1.8 65 12-77 111-176 (199)
92 TIGR02030 BchI-ChlI magnesium 35.6 83 0.0018 23.4 4.4 56 21-77 242-304 (337)
93 KOG0785 Isocitrate dehydrogena 34.7 90 0.0019 23.9 4.4 36 39-74 168-203 (365)
94 PF05054 DUF673: Protein of un 34.0 64 0.0014 24.7 3.6 36 16-51 211-248 (357)
95 smart00350 MCM minichromosome 33.9 1.4E+02 0.0031 23.2 5.6 64 15-78 416-500 (509)
96 KOG0784 Isocitrate dehydrogena 33.7 35 0.00076 26.2 2.1 28 47-74 182-209 (375)
97 PRK09862 putative ATP-dependen 31.5 99 0.0021 24.5 4.4 27 52-78 462-488 (506)
98 PRK13406 bchD magnesium chelat 30.6 1.2E+02 0.0026 24.4 4.8 58 20-78 182-246 (584)
99 TIGR02442 Cob-chelat-sub cobal 30.4 1.8E+02 0.0038 23.4 5.7 49 29-78 245-300 (633)
100 PRK13407 bchI magnesium chelat 30.3 2E+02 0.0044 21.3 5.7 60 17-77 235-301 (334)
101 CHL00081 chlI Mg-protoporyphyr 30.0 2.1E+02 0.0046 21.5 5.8 59 19-78 253-318 (350)
102 KOG3902 Histone acetyltransfer 28.9 2.3E+02 0.005 21.5 5.7 56 21-76 29-84 (352)
103 PF02861 Clp_N: Clp amino term 28.8 29 0.00064 17.8 0.8 20 58-77 1-20 (53)
104 COG1067 LonB Predicted ATP-dep 28.8 1.4E+02 0.003 24.5 4.9 57 22-78 326-395 (647)
105 COG1222 RPT1 ATP-dependent 26S 28.5 41 0.0009 26.1 1.8 37 42-78 348-388 (406)
106 KOG3334 Transcription initiati 28.3 63 0.0014 21.8 2.4 29 50-78 46-74 (148)
107 PF04214 DUF411: Protein of un 27.2 59 0.0013 19.2 1.9 20 16-35 39-58 (70)
108 KOG1942 DNA helicase, TBP-inte 26.7 1.5E+02 0.0033 22.9 4.5 64 14-77 364-433 (456)
109 PF00180 Iso_dh: Isocitrate/is 26.4 58 0.0013 24.3 2.3 23 51-73 162-184 (348)
110 PHA02265 hypothetical protein 26.3 1.7E+02 0.0037 18.2 4.4 47 28-75 20-70 (103)
111 TIGR00648 recU recombination p 24.0 50 0.0011 22.6 1.4 21 56-76 126-146 (169)
112 PHA00687 hypothetical protein 23.7 21 0.00045 19.8 -0.4 15 15-29 29-43 (56)
113 TIGR02902 spore_lonB ATP-depen 23.4 2.5E+02 0.0054 22.1 5.3 44 34-77 282-327 (531)
114 PRK07006 isocitrate dehydrogen 23.1 76 0.0017 24.5 2.4 23 50-72 198-220 (409)
115 TIGR00183 prok_nadp_idh isocit 22.3 77 0.0017 24.5 2.3 23 51-73 206-228 (416)
116 PLN00123 isocitrate dehydrogen 22.1 82 0.0018 24.0 2.4 23 50-72 169-191 (360)
117 PRK08997 isocitrate dehydrogen 22.0 80 0.0017 23.7 2.3 22 51-72 149-170 (334)
118 PRK06451 isocitrate dehydrogen 21.8 84 0.0018 24.3 2.4 27 48-74 195-221 (412)
119 COG3267 ExeA Type II secretory 21.6 2.6E+02 0.0055 20.7 4.7 46 33-78 221-269 (269)
120 TIGR02031 BchD-ChlD magnesium 21.6 1.8E+02 0.0039 23.2 4.2 60 18-78 188-254 (589)
121 TIGR01241 FtsH_fam ATP-depende 21.4 87 0.0019 24.1 2.4 28 51-78 264-291 (495)
122 PRK03437 3-isopropylmalate deh 21.3 85 0.0019 23.6 2.3 25 48-72 159-183 (344)
123 PRK10733 hflB ATP-dependent me 20.7 88 0.0019 25.2 2.4 29 50-78 360-388 (644)
124 PLN00118 isocitrate dehydrogen 20.4 89 0.0019 23.9 2.2 22 51-72 186-207 (372)
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=99.91 E-value=1.9e-24 Score=125.58 Aligned_cols=63 Identities=38% Similarity=0.621 Sum_probs=58.4
Q ss_pred CCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 16 EFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 16 ~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
.||+++|+||||.+|++.+||+||.+++++|+|+|+++|+.+|++.|.+++||||+|+||..|
T Consensus 2 ~lP~a~vkri~k~~~~~~~vs~ea~~~i~~a~e~Fi~~l~~~A~~~a~~~~rkti~~~Dv~~A 64 (65)
T PF00808_consen 2 SLPLARVKRIMKSDPDVMRVSKEAVEAIAKAAEEFIQYLAKEANEIAQRDKRKTITYEDVAKA 64 (65)
T ss_dssp SS-HHHHHHHHHHTSTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEE-HHHHHHH
T ss_pred CCChHHHHHHhccCCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHH
Confidence 699999999999999999999999999999999999999999999999999999999999865
No 2
>COG5208 HAP5 CCAAT-binding factor, subunit C [Transcription]
Probab=99.78 E-value=6e-20 Score=129.44 Aligned_cols=74 Identities=32% Similarity=0.514 Sum_probs=67.9
Q ss_pred Hhhhc-CCCCCCCCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 5 AEEQN-TETTRPEFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 5 ~e~e~-~~~~~~~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
+|+|+ ...+...||++||||+||.|.||+.||+||+++++++||.||.+|+-.||-.|.+++|+||+..||+.|
T Consensus 97 ~e~~~q~~~k~h~LPlARIkkvMKtdedVkMisaEaPvlFak~~EiFI~ELTmRAW~~ae~NkRRtLQksDia~A 171 (286)
T COG5208 97 AEEERQILLKDHNLPLARIKKVMKTDEDVKMISAEAPVLFAKITEIFIEELTMRAWINAEENKRRTLQKSDIAAA 171 (286)
T ss_pred HHHhHHHHHHhccCcHHHHHHHHhcccchhheecccchHHHHHHHHHHHHHHHHHHHHHhHhhhhHHHHHHHHHH
Confidence 44443 556677899999999999999999999999999999999999999999999999999999999999875
No 3
>KOG1657 consensus CCAAT-binding factor, subunit C (HAP5) [Transcription]
Probab=99.78 E-value=1.2e-19 Score=128.52 Aligned_cols=72 Identities=33% Similarity=0.496 Sum_probs=68.6
Q ss_pred hhcCCCCCCCCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 7 EQNTETTRPEFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 7 ~e~~~~~~~~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
++..+.+...||++|||+|||.|+++..|++||++++++|||+||..|+..+|..+..++|+|+++.||+.|
T Consensus 65 e~~~d~~~~~lPlaRiKkimK~dedv~mI~~Eapvl~aka~E~Fi~elt~~sw~~Tee~~rrtl~~sdia~a 136 (236)
T KOG1657|consen 65 EGQLDFKNHILPLARIKKIMKSDEDVSMITAEAPVLFAKACELFITELTLRSWVHTEENKRRTLQKSDIAAA 136 (236)
T ss_pred ccccchhhccCcHhhccccccccccccccchhHHHHHHHHHHHHHHHHHHHhhhhhcccccccchHHHHHHH
Confidence 457788899999999999999999999999999999999999999999999999999999999999999864
No 4
>KOG1659 consensus Class 2 transcription repressor NC2, alpha subunit (DRAP1) [Transcription]
Probab=99.72 E-value=5.7e-18 Score=118.22 Aligned_cols=70 Identities=36% Similarity=0.532 Sum_probs=66.2
Q ss_pred cCCCCCCCCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 9 NTETTRPEFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 9 ~~~~~~~~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
..+....+||.+||||||++|.||++|++.+++++++|+|+|++.|+..+++.++..+.|||+..||++|
T Consensus 6 ~~~~~~trfp~aRiKKIMQ~dEdIGKvaqavPViisralElFl~~l~~~t~~~t~~~~aKt~s~~hlkq~ 75 (224)
T KOG1659|consen 6 SFKKYKTRFPPARIKKIMQSDEDIGKVAQAVPVIISRALELFLESLLQKTLEITRSRGAKTVSSSHLKQA 75 (224)
T ss_pred hhhhhhccCCHHHHHHHHhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhcCccccCHHHHHHH
Confidence 3456789999999999999999999999999999999999999999999999999999999999999864
No 5
>COG5247 BUR6 Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription]
Probab=99.69 E-value=1.8e-17 Score=104.67 Aligned_cols=70 Identities=33% Similarity=0.491 Sum_probs=65.3
Q ss_pred cCCCCCCCCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 9 NTETTRPEFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 9 ~~~~~~~~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
+.....++||++||||||+.|.|+++|++..+++.++|+|+|+..|...+...|+..+.+.++.++|..|
T Consensus 16 ~~~~~ktrFP~ar~KkIMQ~deDiGKV~q~tPVIaskalE~Fl~~iv~~s~k~aR~~~skR~t~e~lk~a 85 (113)
T COG5247 16 SQKKKKTRFPIARLKKIMQLDEDIGKVGQSTPVIASKALEMFLTEIVGLSLKEARKKSSKRMTSEFLKRA 85 (113)
T ss_pred hhhhhhhcCCHHHHHHHHHhhhhhhhhhhcchHHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHH
Confidence 3345678999999999999999999999999999999999999999999999999999999999998764
No 6
>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=99.34 E-value=4e-12 Score=81.84 Aligned_cols=68 Identities=24% Similarity=0.341 Sum_probs=62.6
Q ss_pred CCCCCCCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 11 ETTRPEFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 11 ~~~~~~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
....+.||++||.|+||..-...+||.+|+++++..+|++..++.+.|.+.|...++++|+++||..|
T Consensus 15 ~ragL~fPV~ri~R~Lk~~~~a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lA 82 (115)
T cd00074 15 ARAGLQFPVGRIHRYLKKGRYAERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLA 82 (115)
T ss_pred cccCccCcHHHHHHHHHcCccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHH
Confidence 34578999999999999866668999999999999999999999999999999999999999999764
No 7
>KOG1658 consensus DNA polymerase epsilon, subunit C [Replication, recombination and repair]
Probab=99.31 E-value=1.3e-12 Score=87.77 Aligned_cols=67 Identities=30% Similarity=0.495 Sum_probs=63.3
Q ss_pred CCCCCCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 12 TTRPEFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 12 ~~~~~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
....+||++|||.+||.+||+.....++.+++++|+|+|++.|...++.+++..+|+|++..|+..|
T Consensus 55 a~l~rLpL~rik~vvkl~pdl~l~~dea~~l~a~aaelfi~~Ln~~~~~~~q~~k~kt~qr~d~D~a 121 (162)
T KOG1658|consen 55 ASLSRLPLARIKQVVKLDPDLTLLNDEASQLIAKAAELFIQELNDVAYTTAQLRKRKTEQRRDYDTA 121 (162)
T ss_pred hhhhhccHHHHHhhccCCcchhhhhhHHHHHHHHHHHHHHHHHHhccchhHHHHHhhhhhhhccccc
Confidence 5668999999999999999999999999999999999999999999999999999999999987643
No 8
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Probab=99.29 E-value=5.6e-12 Score=78.33 Aligned_cols=65 Identities=31% Similarity=0.422 Sum_probs=59.3
Q ss_pred CCCCCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 13 TRPEFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 13 ~~~~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
....||.+.|+||||.-.. .+||.+|...+..++|.|+..+++.|..+|.+.|||||+.+||..|
T Consensus 16 ~~~~Lp~apv~Ri~r~~~~-~Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI~la 80 (91)
T COG2036 16 TDLLLPKAPVRRILRKAGA-ERVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDIKLA 80 (91)
T ss_pred hhhhcCchHHHHHHHHHhH-HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHH
Confidence 4567999999999997543 3999999999999999999999999999999999999999999754
No 9
>KOG0869 consensus CCAAT-binding factor, subunit A (HAP3) [Transcription]
Probab=99.27 E-value=8.8e-12 Score=83.98 Aligned_cols=70 Identities=24% Similarity=0.317 Sum_probs=63.4
Q ss_pred cCCCCCCCCChHHHHHHhhc-CcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 9 NTETTRPEFPVGRVKKIIKL-DEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 9 ~~~~~~~~lP~arVkrImK~-d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
+......-||++.|-||||. -|...+||+||-..+..|+..||..+|.+|.+.|++.+||||+.+||.-|
T Consensus 25 ~~reqDr~LPIANV~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwA 95 (168)
T KOG0869|consen 25 SLREQDRFLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWA 95 (168)
T ss_pred ccchhhhhccHHHHHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHH
Confidence 34556778999999999994 67778999999999999999999999999999999999999999998643
No 10
>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]
Probab=99.23 E-value=1.9e-11 Score=79.15 Aligned_cols=68 Identities=25% Similarity=0.324 Sum_probs=63.2
Q ss_pred CCCCCCCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 11 ETTRPEFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 11 ~~~~~~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
....+.||++||+|+||.+-..++|+++|+++++.++|+.+.++++-|.+.|+..+.+.|.++||..|
T Consensus 21 a~agl~fpvgrvkr~lk~~~~~~Rig~~A~Vyl~AvleYL~aEilelAgNaA~d~kkkri~PrHlqlA 88 (132)
T COG5262 21 AKAGLIFPVGRVKRLLKKGNYRMRIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIPRHLQLA 88 (132)
T ss_pred hhcCccccHHHHHHHHHcCccceeecCCcHHHHHHHHHHHHHHHHHHhhhhhhhcCcceechHHHHHH
Confidence 34578999999999999887888999999999999999999999999999999999999999999754
No 11
>KOG0870 consensus DNA polymerase epsilon, subunit D [Transcription]
Probab=99.19 E-value=3.4e-11 Score=81.62 Aligned_cols=66 Identities=27% Similarity=0.402 Sum_probs=60.1
Q ss_pred CCCCCChHHHHHHhhc-CcCc-cccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 13 TRPEFPVGRVKKIIKL-DEDI-NKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 13 ~~~~lP~arVkrImK~-d~dv-~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
..+.||.+.|.|++|. -|+. ..||+||..+|++++-.|+.+|+..|.++|..++||||+.+||.+|
T Consensus 7 ~dl~lP~AiI~rlvke~l~E~~vsisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~sadDVl~a 74 (172)
T KOG0870|consen 7 EDLNLPNAIITRLVKEVLPESNVSISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKA 74 (172)
T ss_pred HHhhccHHHHHHHHHHhCccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHH
Confidence 4578999999999995 4555 5899999999999999999999999999999999999999999765
No 12
>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=99.15 E-value=1.6e-10 Score=67.65 Aligned_cols=62 Identities=18% Similarity=0.264 Sum_probs=58.6
Q ss_pred CCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 16 EFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 16 ~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
.||.+-|++|.+.. ++.++|.++...++..+|.|+..++..|..+++..+||||+.+||..|
T Consensus 2 ~~p~~~i~ria~~~-Gi~ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~A 63 (65)
T smart00803 2 WLPKETIKDVAESL-GIGNLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSA 63 (65)
T ss_pred CCCHHHHHHHHHHC-CCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHH
Confidence 58999999999987 667999999999999999999999999999999999999999999764
No 13
>smart00414 H2A Histone 2A.
Probab=99.15 E-value=1.7e-10 Score=73.36 Aligned_cols=68 Identities=21% Similarity=0.350 Sum_probs=62.6
Q ss_pred CCCCCCCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 11 ETTRPEFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 11 ~~~~~~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
....++||++||.|.||..-...+|+..|+++++.++|++..++.+.|.+.+...+++.|+++||..|
T Consensus 4 ~ragL~fPVgRi~r~Lk~~~~~~Rv~~~A~VyLaAvLEYLtaEILeLagn~a~~~k~~rItp~hi~lA 71 (106)
T smart00414 4 ARAGLQFPVGRIHRLLRKGTYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLA 71 (106)
T ss_pred ccCCccCchHHHHHHHHcCccccccccccHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccchHHHhhh
Confidence 34578999999999999876677999999999999999999999999999999999999999999765
No 14
>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=99.07 E-value=2.5e-10 Score=67.11 Aligned_cols=66 Identities=30% Similarity=0.378 Sum_probs=57.9
Q ss_pred CCCCCChHHHHHHhhcCcCc-cccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 13 TRPEFPVGRVKKIIKLDEDI-NKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 13 ~~~~lP~arVkrImK~d~dv-~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
..+.+|+.||.|-+..+-.. .++|++|+.++..++|.|+..+...|+.+|...||+||+++||..|
T Consensus 5 ~~~~~~~~r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~tI~~~DI~~A 71 (75)
T PF00125_consen 5 LIPKFPFSRLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRKTITPRDIQLA 71 (75)
T ss_dssp SSSHHHHHHHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBSEEGHHHHHHH
T ss_pred ccCceEEeeeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCcEecHHHHHHH
Confidence 35667888888888776554 3899999999999999999999999999999999999999999754
No 15
>PTZ00017 histone H2A; Provisional
Probab=99.05 E-value=5.4e-10 Score=73.65 Aligned_cols=67 Identities=25% Similarity=0.348 Sum_probs=61.8
Q ss_pred CCCCCCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 12 TTRPEFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 12 ~~~~~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
...++||++||.|.||..--..+|+..|+++++..+|++..++.+.|.+.+...+++.|+++||..|
T Consensus 23 ragL~FPVgRi~R~Lk~g~~a~RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk~RItPrHi~lA 89 (134)
T PTZ00017 23 KAGLQFPVGRVHRYLKKGRYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKRITPRHIQLA 89 (134)
T ss_pred cCCcccchHHHHHHHhccchhccccccchhhhHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHhh
Confidence 4478999999999999866667999999999999999999999999999999999999999999764
No 16
>PLN00154 histone H2A; Provisional
Probab=99.04 E-value=7.5e-10 Score=73.10 Aligned_cols=67 Identities=22% Similarity=0.285 Sum_probs=61.4
Q ss_pred CCCCCCChHHHHHHhhcCc-CccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 12 TTRPEFPVGRVKKIIKLDE-DINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 12 ~~~~~lP~arVkrImK~d~-dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
...++||++||.|+||..- ...+|++.|+++++..+|++..++.+.|.+.|+..+++.|+++||..|
T Consensus 34 rAgL~FPVgRi~r~Lk~g~~~~~RVga~ApVYLAAVLEYLtAEVLELAGNaA~d~kk~RItPrHi~lA 101 (136)
T PLN00154 34 RAGLQFPVGRIHRQLKQRVSAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLA 101 (136)
T ss_pred ccCccCchHHHHHHHHhhhhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhCCceecHHHhhhh
Confidence 3478999999999999864 456999999999999999999999999999999999999999999765
No 17
>smart00417 H4 Histone H4.
Probab=98.99 E-value=2.4e-09 Score=64.35 Aligned_cols=62 Identities=11% Similarity=0.165 Sum_probs=58.5
Q ss_pred CCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 16 EFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 16 ~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
.+|.+-|+||.+.. ++.+||.++...+...+|.|++.++..|..++...+||||+..||.-|
T Consensus 13 gI~k~~IrRLaRr~-GvkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~~a 74 (74)
T smart00417 13 GITKPAIRRLARRG-GVKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVVYA 74 (74)
T ss_pred CCCHHHHHHHHHHc-CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHheeC
Confidence 59999999999977 778999999999999999999999999999999999999999999654
No 18
>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=98.96 E-value=2.6e-09 Score=65.67 Aligned_cols=62 Identities=13% Similarity=0.179 Sum_probs=58.3
Q ss_pred CCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 16 EFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 16 ~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
.+|.+-|+||.+.. ++.+||.++...+..+++.|++.++..|..++...+||||+..||..|
T Consensus 13 gi~k~~I~RLarr~-GvkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~a 74 (85)
T cd00076 13 GITKPAIRRLARRG-GVKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYA 74 (85)
T ss_pred cCCHHHHHHHHHHc-CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHH
Confidence 49999999999987 588999999999999999999999999999999999999999999643
No 19
>PLN00153 histone H2A; Provisional
Probab=98.95 E-value=2.6e-09 Score=70.07 Aligned_cols=67 Identities=21% Similarity=0.322 Sum_probs=61.6
Q ss_pred CCCCCCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 12 TTRPEFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 12 ~~~~~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
...++||++||.|.||..--..+|+..|+++++..+|++..++.+.|.+.+...+++.|+++||..|
T Consensus 20 ragL~FpVgRi~R~Lr~g~~a~Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lA 86 (129)
T PLN00153 20 KAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIVPRHIQLA 86 (129)
T ss_pred ccCcccchHHHHHHHhcCchhhccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccChHHHHhh
Confidence 3478999999999999765667999999999999999999999999999999999999999999764
No 20
>PLN00156 histone H2AX; Provisional
Probab=98.94 E-value=3e-09 Score=70.48 Aligned_cols=67 Identities=24% Similarity=0.343 Sum_probs=61.4
Q ss_pred CCCCCCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 12 TTRPEFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 12 ~~~~~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
...++||++||.|.|+..--..+|+..|+++++..+|+...++.+.|.+.+...+++.|+++||..|
T Consensus 25 rAgL~FPVgRi~R~Lk~g~ya~RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~RItPrHi~lA 91 (139)
T PLN00156 25 KAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLA 91 (139)
T ss_pred ccCcccchHHHHHHHhcCChhhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHhh
Confidence 3478899999999999865667999999999999999999999999999999999999999999764
No 21
>PLN00157 histone H2A; Provisional
Probab=98.94 E-value=3e-09 Score=69.96 Aligned_cols=67 Identities=22% Similarity=0.323 Sum_probs=61.6
Q ss_pred CCCCCCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 12 TTRPEFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 12 ~~~~~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
...++||++||.|.||..--..+|+..|+++++..+|++..++.+.|.+.+...+++.|+++||..|
T Consensus 22 ragL~FPVgRi~R~Lk~g~~a~RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lA 88 (132)
T PLN00157 22 KAGLQFPVGRIARYLKAGKYATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSRIVPRHIQLA 88 (132)
T ss_pred ccCcccchHHHHHHHhcCchhhhcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHhhc
Confidence 3478999999999999865557999999999999999999999999999999999999999999765
No 22
>PLN00035 histone H4; Provisional
Probab=98.92 E-value=3.9e-09 Score=66.92 Aligned_cols=62 Identities=11% Similarity=0.183 Sum_probs=58.2
Q ss_pred CCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 16 EFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 16 ~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
.||.+-|+||.+.- ++.+||.++...+..++|.|++.++..|..++...+||||+.+||..|
T Consensus 29 ~ipk~~IrRLARr~-GvkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA~RKTV~~~DV~~A 90 (103)
T PLN00035 29 GITKPAIRRLARRG-GVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYA 90 (103)
T ss_pred cCCHHHHHHHHHHc-CcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHH
Confidence 49999999999977 588999999999999999999999999999999999999999999643
No 23
>KOG1756 consensus Histone 2A [Chromatin structure and dynamics]
Probab=98.89 E-value=3.4e-09 Score=69.28 Aligned_cols=68 Identities=21% Similarity=0.345 Sum_probs=62.6
Q ss_pred CCCCCCCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 11 ETTRPEFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 11 ~~~~~~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
....++||++||.|+||..--..+|+..|+++++..+|+...++++.|.+.|+.+++..|+++||..|
T Consensus 22 ~~agl~fPvgri~r~Lr~~~~~~ri~~gapV~laavLeYL~Aeile~agnaardnkk~ri~PrH~~lA 89 (131)
T KOG1756|consen 22 SRAGLQFPVGRIHRLLRKGRYAQRVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRITPRHLQLA 89 (131)
T ss_pred hhcccccCHHHHHHHHHccchhhhccCCChHHHHHHHHHHHHHHHHHhHHHhhhcCccccChHHHHHH
Confidence 34578999999999999966777999999999999999999999999999999999999999999754
No 24
>PTZ00015 histone H4; Provisional
Probab=98.86 E-value=9e-09 Score=65.15 Aligned_cols=63 Identities=16% Similarity=0.242 Sum_probs=58.8
Q ss_pred CCCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 15 PEFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 15 ~~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
..+|.+-|+||.+.. ++.+||.++...+...+|.|++.++.+|..+|...+||||+.+||..|
T Consensus 29 ~gI~k~~IrRLarr~-GvkRIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt~~DV~~A 91 (102)
T PTZ00015 29 RGITKGAIRRLARRG-GVKRISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVTAMDVVYA 91 (102)
T ss_pred cCCCHHHHHHHHHHc-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHH
Confidence 459999999999987 778999999999999999999999999999999999999999999643
No 25
>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=98.84 E-value=8.7e-09 Score=68.95 Aligned_cols=64 Identities=23% Similarity=0.314 Sum_probs=59.3
Q ss_pred CCCCChHHHHHHhhc-Cc-CccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 14 RPEFPVGRVKKIIKL-DE-DINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 14 ~~~lP~arVkrImK~-d~-dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
...||-+-|.+|+|. -| |+ +|.+||..+|-.||-.||..|+.+|.+.|....+|||.++||.+|
T Consensus 10 e~sLPkAtv~KmIke~lP~d~-rvakeareliincCvEFI~liSsEAneic~~e~KKTIa~EHV~KA 75 (156)
T KOG0871|consen 10 ELSLPKATVNKMIKEMLPKDV-RVAKEARELIINCCVEFINLISSEANEICNKEAKKTIAPEHVIKA 75 (156)
T ss_pred cccCcHHHHHHHHHHhCCccc-ccchHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcccCCHHHHHHH
Confidence 578999999999995 55 64 899999999999999999999999999999999999999999765
No 26
>PTZ00252 histone H2A; Provisional
Probab=98.81 E-value=2e-08 Score=66.23 Aligned_cols=67 Identities=24% Similarity=0.312 Sum_probs=60.3
Q ss_pred CCCCCCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHh--CCCCccCchhhhcC
Q 038850 12 TTRPEFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIE--KKRKTIKLGDMRVA 78 (78)
Q Consensus 12 ~~~~~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~--~~rkti~~~Di~~A 78 (78)
.-.++||++||.|.|+..--..+|+..|+++++..+|+...++.+.|.+.|++ .+++.|+++||..|
T Consensus 21 rAGL~FPVgRi~R~Lr~g~ya~RIga~ApVYLAAVLEYLtaEVLELAgnaa~d~~~kk~RItPrHi~lA 89 (134)
T PTZ00252 21 KAGLIFPVGRVGSLLRRGQYARRIGASGAVYMAAVLEYLTAELLELSVKAAAQQAKKPKRLTPRTVTLA 89 (134)
T ss_pred ccCccCchHHHHHHHHcCCcccccCCccHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccccHHHHHhh
Confidence 44689999999999997666679999999999999999999999999999975 68899999999764
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=98.57 E-value=3.2e-07 Score=54.36 Aligned_cols=60 Identities=13% Similarity=0.291 Sum_probs=53.8
Q ss_pred CChHHHHHHhhc-CcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhc
Q 038850 17 FPVGRVKKIIKL-DEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRV 77 (78)
Q Consensus 17 lP~arVkrImK~-d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~ 77 (78)
++-..+..++|. ||. .+++.+|..++...+|.|+..+++.|...|+..||+||..+||.-
T Consensus 2 ~~k~~l~~lv~~id~~-~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~tv~~~Di~l 62 (72)
T cd07981 2 LTKRKLQELLKEIDPR-EQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSDTLEVKDVQL 62 (72)
T ss_pred CcHHHHHHHHHhhCCC-CCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHH
Confidence 456677888884 776 689999999999999999999999999999999999999999964
No 28
>smart00428 H3 Histone H3.
Probab=98.49 E-value=5.7e-07 Score=57.20 Aligned_cols=66 Identities=27% Similarity=0.325 Sum_probs=55.0
Q ss_pred CCCCCCChHHH-HHHhhc-Cc--CccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 12 TTRPEFPVGRV-KKIIKL-DE--DINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 12 ~~~~~lP~arV-krImK~-d~--dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
..-..+|.+|+ +.|+.. .+ + -+++.+|..++..|+|.|+..|.+.|+.+|...||.||..+||..|
T Consensus 28 lLI~k~pF~RLVREI~~~~~~~~~-~R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~~kDi~La 97 (105)
T smart00428 28 LLIRKAPFQRLVREIAQKFTTGVD-LRFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIMPKDIQLA 97 (105)
T ss_pred cccccccHHHHHHHHHHHcCCCCC-ceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCcHhhHHHH
Confidence 34467888885 455554 22 3 3899999999999999999999999999999999999999999743
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=98.44 E-value=7.9e-07 Score=54.53 Aligned_cols=64 Identities=19% Similarity=0.337 Sum_probs=57.3
Q ss_pred CCCCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC---CccCchhhhcC
Q 038850 14 RPEFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKR---KTIKLGDMRVA 78 (78)
Q Consensus 14 ~~~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~r---kti~~~Di~~A 78 (78)
...||-+.|||||..--+ ..++.+.+.+++..+.+|+.+|+++|.+...+.+. .-|+++||..|
T Consensus 14 ra~f~k~~iKr~~~~~~~-~~v~~~v~i~v~glaKvFVGeivE~A~~V~~~~~~~~~~Pl~P~HireA 80 (85)
T cd08048 14 RSSFPKAAIKRLIQSVTG-QSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGEANTGPLQPRHLREA 80 (85)
T ss_pred HhhccHHHHHHHHHHHcC-CCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCCcHHHHHH
Confidence 456999999999998766 68999999999999999999999999999987654 89999999875
No 30
>COG5150 Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=98.17 E-value=5.1e-06 Score=54.76 Aligned_cols=66 Identities=24% Similarity=0.235 Sum_probs=58.5
Q ss_pred CCCCCChHHHHHHhhc-CcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 13 TRPEFPVGRVKKIIKL-DEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 13 ~~~~lP~arVkrImK~-d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
....||-+.|.+++-. -|--..+.+||..++-.||-.||.-|+.+|.+.|.....|||.|.||-+|
T Consensus 8 De~sLPKATVqKMvS~iLp~dl~ftKearei~in~cieFi~~lsseAne~ce~EaKKTIa~EHviKA 74 (148)
T COG5150 8 DENSLPKATVQKMVSSILPKDLVFTKEAREIFINACIEFINMLSSEANEACEEEAKKTIAYEHVIKA 74 (148)
T ss_pred ccccCcHHHHHHHHHHhccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHH
Confidence 3568999999999984 33334799999999999999999999999999999999999999999765
No 31
>KOG1757 consensus Histone 2A [Chromatin structure and dynamics]
Probab=98.14 E-value=4.2e-06 Score=54.12 Aligned_cols=67 Identities=22% Similarity=0.293 Sum_probs=59.1
Q ss_pred CCCCCCChHHHHHHhhcC-cCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 12 TTRPEFPVGRVKKIIKLD-EDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 12 ~~~~~lP~arVkrImK~d-~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
....+||++||+|.+|.. ...++|++.+.+..+..+|+...+..+-|.+.++.-+-|.|+++|+..|
T Consensus 26 raGlqFpVgRihr~LK~r~t~h~rVGataavy~aaileYLTaEVLeLAgNasKdLKvKRitprHlqLA 93 (131)
T KOG1757|consen 26 RAGLQFPVGRIHRHLKTRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLA 93 (131)
T ss_pred hcccccchHHHHHHHHHhcccccccchHHHHHHHHHHHHHHHHHHHHcccccccceeeeccchhheee
Confidence 346899999999999974 4556999999999999999999999999999999999999999998754
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=98.12 E-value=1.4e-05 Score=47.01 Aligned_cols=62 Identities=23% Similarity=0.257 Sum_probs=48.9
Q ss_pred CCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 16 EFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 16 ~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
.||..-||-|-.+- ++..++.|+...++.-+|+-+.++...|..+++.++|++|+.+||..|
T Consensus 3 ~~~~esvk~iAes~-Gi~~l~de~a~~La~dveyrlreiiq~a~kfm~hskR~~Lt~~Di~~A 64 (66)
T PF02969_consen 3 VFSQESVKDIAESL-GISNLSDEAAKALAEDVEYRLREIIQEALKFMRHSKRTKLTTDDINSA 64 (66)
T ss_dssp ---HHHHHHHHHHT-T---B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHH
T ss_pred cCCHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHH
Confidence 47778888887776 667899999999999999999999999999999999999999999765
No 33
>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=2e-05 Score=58.27 Aligned_cols=60 Identities=22% Similarity=0.301 Sum_probs=53.9
Q ss_pred ChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 18 PVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 18 P~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
|..-||-|.++- ++.+++.||...++..+|.++..++++|..+++..||+||+.+||..|
T Consensus 1 ~~~~i~~ia~~~-Gi~~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di~~A 60 (343)
T cd08050 1 PQESIKLIAESL-GIDSLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHA 60 (343)
T ss_pred ChhHHHHHHHHc-CCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHH
Confidence 445678888876 567999999999999999999999999999999999999999999765
No 34
>PLN00121 histone H3; Provisional
Probab=97.98 E-value=2.2e-05 Score=51.94 Aligned_cols=65 Identities=26% Similarity=0.353 Sum_probs=54.4
Q ss_pred CCCCCCChHHHHH-Hhhc-CcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhc
Q 038850 12 TTRPEFPVGRVKK-IIKL-DEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRV 77 (78)
Q Consensus 12 ~~~~~lP~arVkr-ImK~-d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~ 77 (78)
..-..+|..|+-| |... .++. +...+|+.++..|+|.|+-.|-+.++.+|...+|-||..+||.-
T Consensus 61 lLI~k~pF~RLVREI~~~~~~~~-Rf~~~Al~ALQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L 127 (136)
T PLN00121 61 LLIRKLPFQRLVREIAQDFKTDL-RFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQL 127 (136)
T ss_pred cccccccHHHHHHHHHHHhCccc-eeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcceecchhhHHH
Confidence 3456788888544 4443 3444 89999999999999999999999999999999999999999864
No 35
>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=97.97 E-value=1.8e-05 Score=49.09 Aligned_cols=65 Identities=18% Similarity=0.264 Sum_probs=47.3
Q ss_pred CCCCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CCccCchhhhcC
Q 038850 14 RPEFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKK-RKTIKLGDMRVA 78 (78)
Q Consensus 14 ~~~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~-rkti~~~Di~~A 78 (78)
...||-+.|||||+.--+...|+.....+++-.+.+|+.+|.+.|.+...+.+ ..-|++.||.+|
T Consensus 21 Rs~~~k~~ikkli~~~~~~qsv~~~v~i~v~g~aKvFVGEiVE~A~~Vq~~~~~~~pl~P~hlreA 86 (90)
T PF04719_consen 21 RSSFNKAAIKKLINQVLGNQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGETGPLQPDHLREA 86 (90)
T ss_dssp H----HHHHHHHHHHHHS-S---HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--SS--HHHHHHH
T ss_pred HccCCHHHHHHHHHHHcCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHHHHH
Confidence 45699999999999855545799999999999999999999999999988654 448999999765
No 36
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=97.96 E-value=3.6e-05 Score=45.83 Aligned_cols=56 Identities=20% Similarity=0.249 Sum_probs=49.6
Q ss_pred HHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 22 VKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 22 VkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
|-+|++.. +...++.+|...++..++.|+..|++.+.++|...||++.+..||..|
T Consensus 12 Vaqil~~~-Gf~~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~A 67 (77)
T smart00576 12 VAQILESA-GFDSFQESALETLTDILQSYIQELGRTAHSYAELAGRTEPNLGDVVLA 67 (77)
T ss_pred HHHHHHHc-CccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHH
Confidence 55677755 445899999999999999999999999999999999999999999754
No 37
>PLN00160 histone H3; Provisional
Probab=97.95 E-value=2.8e-05 Score=48.88 Aligned_cols=65 Identities=26% Similarity=0.281 Sum_probs=54.0
Q ss_pred CCCCCChHHHHH-Hhhc-CcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhc
Q 038850 13 TRPEFPVGRVKK-IIKL-DEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRV 77 (78)
Q Consensus 13 ~~~~lP~arVkr-ImK~-d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~ 77 (78)
.-.++|..|+-| |... .++.-+...+|..++..|+|.|+-.|-+.++.+|...||-||.++|+.-
T Consensus 21 LI~k~pF~RLVREI~~~~~~~~~Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRVTl~~kD~~L 87 (97)
T PLN00160 21 LIRRLPFARLVREIQMEMSREAYRWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRVTIMPKDMQL 87 (97)
T ss_pred hhccccHHHHHHHHHHHcCCCCcEeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcccccchhhHHH
Confidence 346788888644 4432 2343589999999999999999999999999999999999999999864
No 38
>PTZ00018 histone H3; Provisional
Probab=97.95 E-value=2.7e-05 Score=51.54 Aligned_cols=65 Identities=26% Similarity=0.353 Sum_probs=54.4
Q ss_pred CCCCCCChHHHHH-Hhhc-CcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhc
Q 038850 12 TTRPEFPVGRVKK-IIKL-DEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRV 77 (78)
Q Consensus 12 ~~~~~lP~arVkr-ImK~-d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~ 77 (78)
..-..+|..|+-| |... .++. +...+|+.++..|+|.|+-.|-+.++.+|...+|-||..+||.-
T Consensus 61 lLI~k~pF~RLVREI~~~~~~~~-rf~~~al~aLQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L 127 (136)
T PTZ00018 61 LLIRKLPFQRLVREIAQDFKTDL-RFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQL 127 (136)
T ss_pred hccccccHHHHHHHHHHHcCCcc-eeeHHHHHHHHHHHHHHHHHHhhhhHHHHHhhcceecchhhHHH
Confidence 3346788888554 4443 4454 89999999999999999999999999999999999999999864
No 39
>PLN00161 histone H3; Provisional
Probab=97.90 E-value=4.6e-05 Score=50.40 Aligned_cols=67 Identities=33% Similarity=0.340 Sum_probs=55.3
Q ss_pred CCCCCCCChHHHH-HHhhc-CcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhc
Q 038850 11 ETTRPEFPVGRVK-KIIKL-DEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRV 77 (78)
Q Consensus 11 ~~~~~~lP~arVk-rImK~-d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~ 77 (78)
+..-..+|.+|+- .|+.. .++.-++..+|+.++..|+|.|+-.|-+.++.+|...+|-||..+||..
T Consensus 53 ~lLIpklPF~RLVREI~~~~~~~~~Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHAkRVTlm~kDm~L 121 (135)
T PLN00161 53 ELLIRKLPFARLVREISNEMLREPFRWTAEALLALQEATEDFLVHLFEDCNLCAIHAKRVTIMPKDMQL 121 (135)
T ss_pred ccccccccHHHHHHHHHHhcCCCCcEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchhhHHH
Confidence 3345788988864 45443 2333489999999999999999999999999999999999999999864
No 40
>PF15510 CENP-W: Centromere kinetochore component W
Probab=97.89 E-value=1.6e-05 Score=49.79 Aligned_cols=65 Identities=26% Similarity=0.314 Sum_probs=56.6
Q ss_pred CCCCChHHHHHHhhcCcCccccchHHHHH--------------HHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 14 RPEFPVGRVKKIIKLDEDINKVTSEALFI--------------VSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 14 ~~~lP~arVkrImK~d~dv~~vs~eA~~~--------------i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
...-|.+.+||++|.....-++...+..+ +...|-+|+..|+++|-..|-+++-.+|+.+||.+|
T Consensus 14 krkaPrgfLkrv~Kr~KphlRl~~~~Dllv~~~~f~~~~~~~~vhLncLLFvhrLAEEaRtnA~EnK~~~Ik~~Hv~Aa 92 (102)
T PF15510_consen 14 KRKAPRGFLKRVFKRQKPHLRLETSGDLLVRFCPFSGWQWGGEVHLNCLLFVHRLAEEARTNACENKCGTIKKEHVLAA 92 (102)
T ss_pred HHhCchHHHHHHHHhcCCceeecccccHHHhhcccccccccceeehhHHHHHHHHHHHHHHHHHHHhhccccHHHHHHH
Confidence 34679999999999655555788888777 888999999999999999999999999999999764
No 41
>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=97.75 E-value=0.00011 Score=47.24 Aligned_cols=58 Identities=10% Similarity=0.098 Sum_probs=52.5
Q ss_pred HHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 20 GRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 20 arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
.-|.+|+|.- ++..++.+++..+..-++-++..+...|..+|+..||+||+.+||.-|
T Consensus 5 ~~v~~iLk~~-Gv~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lA 62 (117)
T cd07979 5 RVIAAILKSM-GITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLA 62 (117)
T ss_pred HHHHHHHHHC-CCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHH
Confidence 3578899876 567899999999999999999999999999999999999999999754
No 42
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T.
Probab=97.72 E-value=7.2e-05 Score=56.70 Aligned_cols=61 Identities=28% Similarity=0.371 Sum_probs=45.8
Q ss_pred CCCCChHHHHHHhhcC-----cCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchh
Q 038850 14 RPEFPVGRVKKIIKLD-----EDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGD 74 (78)
Q Consensus 14 ~~~lP~arVkrImK~d-----~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~D 74 (78)
-..||.+-||++...- -.-.+|+++|+.+|.+|++-|-+.|+..=--+|.+.|||||...|
T Consensus 349 ~P~lP~~~vK~la~~~ak~s~~sK~kiskdal~aleqasdwfFeQl~dDL~aYA~HAgRKTIdesD 414 (414)
T PF15511_consen 349 YPSLPPGVVKKLAQHFAKSSGGSKMKISKDALEALEQASDWFFEQLGDDLEAYAKHAGRKTIDESD 414 (414)
T ss_dssp ---S-HHHHHHHHHHHH-------S-B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHH
T ss_pred CCCCCccHHHHHHHHHHHhhcccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4669999999987642 233589999999999999999999999999999999999998776
No 43
>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=97.57 E-value=0.00025 Score=42.26 Aligned_cols=60 Identities=17% Similarity=0.332 Sum_probs=48.9
Q ss_pred ChHHHHHHhhc--CcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCc-cCchhhhc
Q 038850 18 PVGRVKKIIKL--DEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKT-IKLGDMRV 77 (78)
Q Consensus 18 P~arVkrImK~--d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkt-i~~~Di~~ 77 (78)
|..-|.||++. ..+-.+|+++|..++++=.++|+.+-...|...++..|... |..+||.+
T Consensus 1 p~~li~rll~~~f~~~~tkIs~dal~l~~eyl~iFV~EAv~Ra~~~a~~e~~~~~le~e~LEk 63 (72)
T PF09415_consen 1 PPELIARLLHEHFKDDKTKISKDALKLSAEYLRIFVREAVARAAEQAEAEGDEGFLEVEHLEK 63 (72)
T ss_dssp -CHHHHHHHCTTSSSTT-EE-CCCHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSEE-HHHHHH
T ss_pred ChHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCHHHHHH
Confidence 66778999996 23556899999999999999999999999999999999888 99999864
No 44
>smart00427 H2B Histone H2B.
Probab=97.53 E-value=0.00036 Score=43.24 Aligned_cols=57 Identities=19% Similarity=0.302 Sum_probs=50.3
Q ss_pred HHHHHhh-cCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 21 RVKKIIK-LDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 21 rVkrImK-~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
-|.|++| .+||. .+|..|...+.--.-.+.+.++.+|...+..++|+||+.++|..|
T Consensus 6 Yi~kvLKqVhpd~-giS~kam~imnSfvnDiferIa~EAs~L~~~nkr~TltsreIqtA 63 (89)
T smart00427 6 YIYKVLKQVHPDT-GISSKAMSIMNSFVNDIFERIAAEASKLARYNKKSTLSSREIQTA 63 (89)
T ss_pred HHHHHHHHhCCCc-cccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHH
Confidence 4788888 58997 599999998988888888999999999999999999999999764
No 45
>KOG1658 consensus DNA polymerase epsilon, subunit C [Replication, recombination and repair]
Probab=97.34 E-value=0.00026 Score=47.91 Aligned_cols=49 Identities=27% Similarity=0.429 Sum_probs=44.5
Q ss_pred hcCCCCCCCCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHH
Q 038850 8 QNTETTRPEFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAE 56 (78)
Q Consensus 8 e~~~~~~~~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~ 56 (78)
+........||++++++|-|.+|....-+.+|....+.++|.|++.|+.
T Consensus 3 ~~~~e~~p~~p~ekvkkiak~dPey~~te~~a~~etafatE~fvq~lv~ 51 (162)
T KOG1658|consen 3 ASAPECSPKLPMEKVKKIAKNDPEYMDTEDDAFVETAFATEQFVQVLVH 51 (162)
T ss_pred ccchhhCccccHHHHHHhhcCCchhhhcccchHHHHHHHHHHHHhhhhh
Confidence 3456678899999999999999999888889999999999999999998
No 46
>PLN00158 histone H2B; Provisional
Probab=97.24 E-value=0.0013 Score=42.56 Aligned_cols=59 Identities=19% Similarity=0.255 Sum_probs=51.4
Q ss_pred hHHHHHHhh-cCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 19 VGRVKKIIK-LDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 19 ~arVkrImK-~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
-.-|.|++| .+||.+ ||..|..++.--...+.+.++.+|...+..++|+||+.++|..|
T Consensus 30 ~~YI~kVLKQVhPd~g-IS~kaM~ImnSfvnDiferIA~EAs~La~~nkr~TltsrEIqtA 89 (116)
T PLN00158 30 KIYIYKVLKQVHPDTG-ISSKAMSIMNSFINDIFEKIATEAGKLARYNKKPTVTSREIQTA 89 (116)
T ss_pred HHHHHHHHHHhCCCCC-ccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHH
Confidence 345888888 489975 89999988888888888899999999999999999999999865
No 47
>PTZ00463 histone H2B; Provisional
Probab=97.22 E-value=0.0016 Score=42.23 Aligned_cols=57 Identities=14% Similarity=0.229 Sum_probs=50.0
Q ss_pred HHHHHhh-cCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 21 RVKKIIK-LDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 21 rVkrImK-~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
-|.|++| .+||.+ ||..|..++.--.....+.++.+|...+...+|.||+.++|..|
T Consensus 33 YI~KVLKqVhPd~g-IS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~TltsrEIQtA 90 (117)
T PTZ00463 33 YIFKVLKQVHPDTG-ISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLSSREIQTA 90 (117)
T ss_pred HHHHHHHhhCCCCC-ccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHH
Confidence 3888888 499975 89999988888778888899999999999999999999999865
No 48
>KOG1745 consensus Histones H3 and H4 [Chromatin structure and dynamics]
Probab=97.15 E-value=0.00069 Score=44.96 Aligned_cols=64 Identities=27% Similarity=0.286 Sum_probs=56.2
Q ss_pred CCCChHHHHH-HhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 15 PEFPVGRVKK-IIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 15 ~~lP~arVkr-ImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
..+|..|+-| |++.-...-+..+.|..++..|.|.|+-.|-+.++-+|-..||-||-++||.-|
T Consensus 65 ~K~PFqRlvrei~q~f~~dLrfqs~Ai~ALQeA~EayLv~LfEdtnlcAihAkRVTimpkdiQlA 129 (137)
T KOG1745|consen 65 RKLPFQRLVREIAQDFKTDLRFQSSAIAALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLA 129 (137)
T ss_pred hcCcHHHHhHHHHhcccccceehHHHHHHHHHHHHHHHHHhccccchhhhccceeEecccceehh
Confidence 4788888877 888643345899999999999999999999999999999999999999999754
No 49
>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=97.12 E-value=0.00078 Score=41.67 Aligned_cols=55 Identities=18% Similarity=0.264 Sum_probs=34.2
Q ss_pred HHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhh
Q 038850 22 VKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMR 76 (78)
Q Consensus 22 VkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~ 76 (78)
|+.+|-.-.|+..-..|.+.++-..+-.|+..|+..|...|...|+++|+.+|+.
T Consensus 7 I~~mMy~fGD~~~P~~eTv~lvE~iv~~~i~~l~~~A~~~a~~rg~~~i~~eDl~ 61 (93)
T PF02269_consen 7 IRQMMYGFGDVEEPLPETVDLVEDIVREYIIELCQEAMEVAQRRGSKKIKVEDLL 61 (93)
T ss_dssp CHHHHHCTTS-SS--HHHHHHHHHHHHHHHHHHHHHHHC----------------
T ss_pred HHHHHHHcCCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCcCcHHHHH
Confidence 6788999899999999999999999999999999999999999999999999984
No 50
>KOG3219 consensus Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=97.11 E-value=0.00038 Score=48.53 Aligned_cols=65 Identities=17% Similarity=0.286 Sum_probs=55.9
Q ss_pred CCCCCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhC-CCCccCchhhhcC
Q 038850 13 TRPEFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEK-KRKTIKLGDMRVA 78 (78)
Q Consensus 13 ~~~~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~-~rkti~~~Di~~A 78 (78)
+...||-+.|||+|..=.+-. |+..+.++++--+.+|+.++.+.|...+... ...-|++.||..|
T Consensus 109 Rrs~f~Ka~iKkL~~~itg~~-v~~nv~Ia~~GiaKvFVGEvVEeAl~V~~~~~e~~PLqP~HIREA 174 (195)
T KOG3219|consen 109 RRSAFPKAQIKKLMSSITGQS-VSENVAIAMAGIAKVFVGEVVEEALDVREEWGESGPLQPKHIREA 174 (195)
T ss_pred HHhcCCHHHHHHHHHHHhCCc-cCcceeeeecchhhHhHHHHHHHHHHHHHHhccCCCCCcHHHHHH
Confidence 467899999999999765544 9999999999999999999999999998754 4667999999765
No 51
>PLN00155 histone H2A; Provisional
Probab=96.97 E-value=0.001 Score=38.25 Aligned_cols=38 Identities=21% Similarity=0.385 Sum_probs=33.2
Q ss_pred CCCCCCChHHHHHHhhcCcCccccchHHHHHHHHHHHH
Q 038850 12 TTRPEFPVGRVKKIIKLDEDINKVTSEALFIVSRSTEL 49 (78)
Q Consensus 12 ~~~~~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~El 49 (78)
...++||++||.|.++..--..+|+..|++.++..+|+
T Consensus 20 rAgL~FPVgri~r~Lr~g~~a~Rvga~apVYlAAVLEY 57 (58)
T PLN00155 20 KAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEY 57 (58)
T ss_pred ccccccchHHHHHHHhcCChhhcccCCcHHHHHHHHHh
Confidence 34789999999999998766679999999999998875
No 52
>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=96.96 E-value=0.0058 Score=35.94 Aligned_cols=56 Identities=14% Similarity=0.285 Sum_probs=44.2
Q ss_pred HHHHHHhhc-CcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhh
Q 038850 20 GRVKKIIKL-DEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMR 76 (78)
Q Consensus 20 arVkrImK~-d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~ 76 (78)
.++..+++. ||. ..+..++-.++...++-||..++..|...|+..|..||..+||.
T Consensus 3 ~~l~~Lv~~iDp~-~~ld~~vee~Ll~laddFv~~v~~~ac~lAKhR~s~tle~~Dv~ 59 (68)
T PF03847_consen 3 RKLQELVKQIDPN-EKLDPDVEELLLELADDFVDDVVSFACRLAKHRKSSTLEVKDVQ 59 (68)
T ss_dssp HHHHHHHHCC-SS-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHH
T ss_pred HHHHHHHHHcCCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHHH
Confidence 356677774 777 47999999999999999999999999999999999999999985
No 53
>KOG1744 consensus Histone H2B [Chromatin structure and dynamics]
Probab=96.53 E-value=0.0082 Score=39.40 Aligned_cols=56 Identities=23% Similarity=0.342 Sum_probs=45.3
Q ss_pred HHHHhh-cCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 22 VKKIIK-LDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 22 VkrImK-~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
|.|++| .+||.+ ++.++.-++.--.-.|.+.++.+|...|...||.||+.++|..|
T Consensus 43 v~kvlk~Vhpd~g-is~~a~~vmnsf~ndife~iA~ea~rla~y~krstisSreiqta 99 (127)
T KOG1744|consen 43 VYKVLKQVHPDLG-ISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTISSREIQTA 99 (127)
T ss_pred hhhhhhcccCCCC-cCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCcccHHHHHHH
Confidence 344777 588866 77777777766666678999999999999999999999998753
No 54
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C.
Probab=96.52 E-value=0.018 Score=34.60 Aligned_cols=55 Identities=24% Similarity=0.239 Sum_probs=42.9
Q ss_pred HHHHhhcC--cCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhh
Q 038850 22 VKKIIKLD--EDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMR 76 (78)
Q Consensus 22 VkrImK~d--~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~ 76 (78)
|-+|.+.- +.-..+|+....+++..+=.++..++..=..+|+..||+||+.+||.
T Consensus 11 v~ki~ee~~~~~~~~~s~~~i~al~ELv~~q~~~~a~DLe~FAkHA~R~tI~~dDV~ 67 (76)
T PF15630_consen 11 VGKIVEEEAKEKGVEVSPQFIAALTELVYKQLENLAKDLEAFAKHAGRSTINMDDVK 67 (76)
T ss_dssp HHHHHHHCCCCTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHH
T ss_pred HHHHHHHHHhccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHH
Confidence 44555542 23347999999999999999999999999999999999999999985
No 55
>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=96.44 E-value=0.019 Score=35.56 Aligned_cols=56 Identities=18% Similarity=0.268 Sum_probs=49.5
Q ss_pred HHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhh
Q 038850 20 GRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMR 76 (78)
Q Consensus 20 arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~ 76 (78)
.-|+.+|-.-.|+..-..|.+.++-..+--|+..|+..|.+.|. .++..++.+|+.
T Consensus 6 ~ei~~mmy~~GD~~~P~~eTv~llE~iv~~~i~~l~~~a~~~A~-~r~~k~~~eD~~ 61 (92)
T cd07978 6 KEIRQMMYGFGDVQNPLPETVDLLEDIVVEYIIELCHKAAEVAQ-RRRGKVKVEDLI 61 (92)
T ss_pred HHHHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHH
Confidence 45889999999999999999999999999999999999999999 555556999874
No 56
>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=96.31 E-value=0.022 Score=33.45 Aligned_cols=56 Identities=21% Similarity=0.248 Sum_probs=47.0
Q ss_pred HHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 22 VKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 22 VkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
|-+|++.. +-..+++.|+..++-.+..|++.|...+..+|...+|......||..|
T Consensus 12 va~il~~~-GF~~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt~~~~~Dv~~a 67 (77)
T PF07524_consen 12 VAQILKHA-GFDSASPSALDTLTDILQRYLQELGRTAKRYAEHAGRTEPNLQDVEQA 67 (77)
T ss_pred HHHHHHHc-CccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHH
Confidence 34455443 344799999999999999999999999999999999999999998653
No 57
>KOG3467 consensus Histone H4 [Chromatin structure and dynamics]
Probab=95.83 E-value=0.036 Score=34.59 Aligned_cols=55 Identities=13% Similarity=0.213 Sum_probs=48.3
Q ss_pred HHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhh
Q 038850 21 RVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMR 76 (78)
Q Consensus 21 rVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~ 76 (78)
-|+||-+.. .|.+|+.--..-+..+...|++....-|..++...+||||+..||.
T Consensus 34 aIRRlARr~-GVkRi~G~~yeE~~~~~k~fl~n~i~~A~~yt~HAKRKTvT~~dvv 88 (103)
T KOG3467|consen 34 AIRRLARRG-GVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVV 88 (103)
T ss_pred HHHHHHHhc-CcchhchhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhceeeHHHHH
Confidence 467776654 7788998888889999999999999999999999999999999874
No 58
>KOG2549 consensus Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=95.04 E-value=0.073 Score=42.31 Aligned_cols=59 Identities=19% Similarity=0.305 Sum_probs=51.6
Q ss_pred hHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 19 VGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 19 ~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
.--+|-+.++- ++.+++.|+..+++.-.|+=+.+++..|.+++...+|.+++.+||..|
T Consensus 14 ~Es~k~vAEsl-Gi~nl~deaa~~La~dv~yrikEI~Q~aaKfm~hskR~kLtv~DV~~A 72 (576)
T KOG2549|consen 14 KESVKVVAESL-GITNLNDEAALLLAEDVEYRIKEIVQDAAKFMVHSKRTKLTVDDVDYA 72 (576)
T ss_pred HHHHHHHHHHh-CccccCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcCcHHHHHHH
Confidence 55556665554 677899999999999999999999999999999999999999999754
No 59
>KOG1142 consensus Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=94.39 E-value=0.21 Score=36.33 Aligned_cols=62 Identities=15% Similarity=0.318 Sum_probs=52.5
Q ss_pred CCCCChHHHHHHhhc-CcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhh
Q 038850 14 RPEFPVGRVKKIIKL-DEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMR 76 (78)
Q Consensus 14 ~~~lP~arVkrImK~-d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~ 76 (78)
..-+-..++..+++. |++ ..+-.|+-.++...++-||..++..|-..|+..+..||-.+||.
T Consensus 152 ~~il~k~kl~dLvqqId~~-~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtlEvrDIq 214 (258)
T KOG1142|consen 152 NPILSKRKLDDLVQQIDGT-TKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTVEVRDIQ 214 (258)
T ss_pred CccccccchhHHHHhhcCc-ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccchhhee
Confidence 344445567777774 544 57999999999999999999999999999999999999999986
No 60
>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=93.91 E-value=0.59 Score=26.14 Aligned_cols=48 Identities=10% Similarity=0.100 Sum_probs=35.7
Q ss_pred CCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 038850 16 EFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIE 64 (78)
Q Consensus 16 ~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~ 64 (78)
.+|=+-+.-+|+.. +...--.-..-+++.|++-|+.+++..|+++++.
T Consensus 2 ~IPD~v~~~yL~~~-G~~~~D~rv~RLvSLaaQKFisdI~~dA~q~~k~ 49 (51)
T PF03540_consen 2 TIPDEVTDYYLERS-GFQTSDPRVKRLVSLAAQKFISDIANDAMQYCKI 49 (51)
T ss_pred CCCHHHHHHHHHHC-CCCCCCHhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 35666677777754 2223344567799999999999999999999874
No 61
>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=93.47 E-value=0.18 Score=35.96 Aligned_cols=45 Identities=31% Similarity=0.341 Sum_probs=32.1
Q ss_pred HHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Q 038850 20 GRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEK 65 (78)
Q Consensus 20 arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~ 65 (78)
.+|.+|++... +..+..|.+.+|+.|||..+..|...+...++..
T Consensus 51 ~~i~~i~~~~g-~~~~~~d~l~llS~A~e~rLr~lie~~~~~s~hR 95 (264)
T PF05236_consen 51 KRIQKIAKKHG-LKSVDEDVLELLSLATEERLRNLIEKAIVLSRHR 95 (264)
T ss_dssp HHHHHHHHCTT---EE-TCHHHHHHHHHHHHHHHHHHHHH------
T ss_pred HHHHHHHHHcC-CcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 46777777665 5689999999999999999999999999998753
No 62
>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=93.35 E-value=0.13 Score=38.95 Aligned_cols=58 Identities=16% Similarity=0.289 Sum_probs=49.9
Q ss_pred HHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 20 GRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 20 arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
..||.+-.+- ++.++..|+.-+++.-.|+=|.+++++|..+....+|..++.+||..|
T Consensus 9 et~KdvAesl-Gi~Ni~Dd~l~alamDlEYRI~ev~qea~KFmvhSKRtvLt~dDis~A 66 (450)
T COG5095 9 ETLKDVAESL-GISNIDDDALRALAMDLEYRIKEVCQEASKFMVHSKRTVLTIDDISYA 66 (450)
T ss_pred HHHHHHHHHc-CCcccccHHHHHHHHhHHHHHHHHHHHHHHHhhcccceeeeHHhHHHH
Confidence 3445444443 677899999999999999999999999999999999999999999865
No 63
>KOG3423 consensus Transcription initiation factor TFIID, subunit TAF10 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=93.25 E-value=0.47 Score=32.68 Aligned_cols=69 Identities=14% Similarity=0.225 Sum_probs=52.2
Q ss_pred cCCCCCCCCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCC--------------CCccCchh
Q 038850 9 NTETTRPEFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKK--------------RKTIKLGD 74 (78)
Q Consensus 9 ~~~~~~~~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~--------------rkti~~~D 74 (78)
.-......+|=+-+--.|+.. ++...-.-..-+|+.|+.-||.+++..|+++++-++ +-|++.+|
T Consensus 79 qLddYtP~IPDavt~~yL~~a-Gf~~~D~rv~RLvsLaAQKfvSDIa~DA~Q~~k~r~~~~~~~~k~~~kdkK~tLtmeD 157 (176)
T KOG3423|consen 79 QLDDYTPTIPDAVTDHYLKKA-GFQTSDPRVKRLVSLAAQKFVSDIANDALQHSKIRTKTAIGKDKKQAKDKKYTLTMED 157 (176)
T ss_pred HHhcCCCCCcHHHHHHHHHhc-CCCcCcHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccccccccccccceeeeHHH
Confidence 445667788888888888876 333455567789999999999999999999998543 44677777
Q ss_pred hhcC
Q 038850 75 MRVA 78 (78)
Q Consensus 75 i~~A 78 (78)
|..|
T Consensus 158 L~~A 161 (176)
T KOG3423|consen 158 LSPA 161 (176)
T ss_pred HHHH
Confidence 6543
No 64
>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=91.27 E-value=0.94 Score=31.34 Aligned_cols=50 Identities=26% Similarity=0.243 Sum_probs=38.5
Q ss_pred CCCChHHHHH----HhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Q 038850 15 PEFPVGRVKK----IIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEK 65 (78)
Q Consensus 15 ~~lP~arVkr----ImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~ 65 (78)
..|....+.+ |++.. ++..++.+...+|+.|||.++..|.......+...
T Consensus 43 ~fl~~~~l~~~~~~i~~~~-g~~~~~~d~~~lis~a~e~rlr~li~k~~~~s~hR 96 (212)
T cd08045 43 SFLNPSPLAKKIRKIAKKH-GLKEVDEDVLDLISLALEERLRNLLEKLIEVSEHR 96 (212)
T ss_pred hccCHHHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4555555544 44443 34479999999999999999999999999998754
No 65
>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=90.58 E-value=1.2 Score=29.22 Aligned_cols=57 Identities=18% Similarity=0.136 Sum_probs=38.0
Q ss_pred HHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 21 RVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 21 rVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
-|..|+|.- +|......++.-+-.-+=-++..+...|..++...+|++|..+||..|
T Consensus 17 ~i~~iL~~~-Gv~~yeprVv~qLLEfayRYt~~vL~DA~~ya~hA~~~~i~~~DVrLA 73 (129)
T PF02291_consen 17 VIHLILKSM-GVTEYEPRVVNQLLEFAYRYTSDVLEDAQVYADHAGRSTIDADDVRLA 73 (129)
T ss_dssp HHHHHHHHT-T---B-THHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHH
T ss_pred HHHHHHHHc-CCcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCChHHHHHH
Confidence 456666665 555555555555544445678889999999999999999999999754
No 66
>PF10979 DUF2786: Protein of unknown function (DUF2786); InterPro: IPR024498 This domain is found in proteins that have no known function.
Probab=85.03 E-value=2.3 Score=22.70 Aligned_cols=35 Identities=17% Similarity=0.406 Sum_probs=27.6
Q ss_pred hHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHH
Q 038850 19 VGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRF 53 (78)
Q Consensus 19 ~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~ 53 (78)
+.||++++..-.+.+.-..||-.++.+|-++..+|
T Consensus 4 l~kI~kLLalA~~~~~~~~EA~~A~~kAq~Lm~ky 38 (43)
T PF10979_consen 4 LEKIRKLLALAESTGSNEHEAEAALAKAQRLMAKY 38 (43)
T ss_pred HHHHHHHHHHhhCCCCCHHHHHHHHHHHHHHHHHh
Confidence 57999999987665444559999999999887665
No 67
>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=80.21 E-value=5.4 Score=28.19 Aligned_cols=31 Identities=13% Similarity=0.253 Sum_probs=27.3
Q ss_pred CccccchHHHHHHHHHHHHHHHHHHHHHHHH
Q 038850 31 DINKVTSEALFIVSRSTELFLRFLAEKSAEA 61 (78)
Q Consensus 31 dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~ 61 (78)
+...|+.+++.++..|+|.|+..|...+...
T Consensus 220 GL~gvs~~~a~ll~~ale~~LK~lI~s~l~~ 250 (252)
T PF12767_consen 220 GLGGVSDDCANLLNLALEVHLKNLIKSCLDL 250 (252)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4457999999999999999999999988764
No 68
>KOG2389 consensus Predicted bromodomain transcription factor [Transcription]
Probab=77.27 E-value=6.8 Score=29.75 Aligned_cols=62 Identities=15% Similarity=0.095 Sum_probs=51.6
Q ss_pred CCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 16 EFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 16 ~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
.|-..+|..|.++-+. ......|...++--+..|||.|.+-|..++.-.||---+..||-.|
T Consensus 29 sla~~avaQIcqslg~-~~~~~sale~Ltd~~~qyvQ~lgk~a~~~~n~anR~epnl~Div~A 90 (353)
T KOG2389|consen 29 SLARVAVAQICQSLGY-SSTQNSALETLTDVLQQYVQNLGKTAHRYSNLANRTEPNLFDIVLA 90 (353)
T ss_pred HHHHHHHHHHHHhcCC-cccccHHHHHHHHHHHHHHHHHHhhhhhhhhhcCCCCccHHHHHHH
Confidence 3445678899998754 4677779999999999999999999999999999988888887653
No 69
>KOG4336 consensus TBP-associated transcription factor Prodos [Transcription]
Probab=74.14 E-value=13 Score=27.87 Aligned_cols=59 Identities=12% Similarity=0.166 Sum_probs=50.9
Q ss_pred hHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhhc
Q 038850 19 VGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMRV 77 (78)
Q Consensus 19 ~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~ 77 (78)
++.|-.+|....+...+++-|..-+.....-.|..+...+..+|.-.||.--++.||.-
T Consensus 7 l~~VV~~Ll~~~gfd~is~~aletlvell~~yi~eigrq~~n~celagRT~pT~~Dv~l 65 (323)
T KOG4336|consen 7 LAPVVSNLLKTKGFDSISNAALETLVELLQSYIREIGRQLHNYCELAGRTIPTQGDVKL 65 (323)
T ss_pred HHHHHHHHHHHhCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHHH
Confidence 45566677776677789999999999999999999999999999999999999999863
No 70
>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=69.59 E-value=6.5 Score=26.93 Aligned_cols=45 Identities=13% Similarity=0.186 Sum_probs=38.6
Q ss_pred ccchHHHHHHHHHHHH---HHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 34 KVTSEALFIVSRSTEL---FLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 34 ~vs~eA~~~i~~A~El---Fi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
.++.++...+...+.= .|..++..++..|...+.++|+.++|..+
T Consensus 215 ~~~~~~~~~i~~~s~G~p~~i~~l~~~~~~~a~~~~~~~i~~~~v~~~ 262 (269)
T TIGR03015 215 VFSEGAFDAIHRFSRGIPRLINILCDRLLLSAFLEEKREIGGEEVREV 262 (269)
T ss_pred CcCHHHHHHHHHHcCCcccHHHHHHHHHHHHHHHcCCCCCCHHHHHHH
Confidence 5888999888887763 69999999999998899999999998753
No 71
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=67.74 E-value=22 Score=25.88 Aligned_cols=60 Identities=18% Similarity=0.129 Sum_probs=41.4
Q ss_pred hHHHHHHhhcCc--C--ccccchHHHHHHHHHHHH------HHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 19 VGRVKKIIKLDE--D--INKVTSEALFIVSRSTEL------FLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 19 ~arVkrImK~d~--d--v~~vs~eA~~~i~~A~El------Fi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
..-++.|++..- . -..++.++...++..+.- ..-.++..|+..|...++.+|+.+||..|
T Consensus 209 ~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~~~~I~~~~v~~a 278 (394)
T PRK00411 209 ADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREGSRKVTEEDVRKA 278 (394)
T ss_pred HHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHH
Confidence 455666665311 0 124788888888776633 34467788888999899999999999754
No 72
>PF13335 Mg_chelatase_2: Magnesium chelatase, subunit ChlI
Probab=67.52 E-value=7.2 Score=23.86 Aligned_cols=60 Identities=17% Similarity=0.168 Sum_probs=46.1
Q ss_pred CCCCCCChHHHHHHhhcCcCccccchHHHHHHHHHHHHH------HHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 12 TTRPEFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELF------LRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 12 ~~~~~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElF------i~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
..+..+|..-|++....+ .++..++..+++-| ...+.+-|+-+|.-.+...|..+||..|
T Consensus 27 ~~Na~l~~~~l~~~~~l~-------~~~~~~l~~~~~~~~lS~R~~~rilrvARTIADL~~~~~I~~~hi~EA 92 (96)
T PF13335_consen 27 KCNAQLPGEELRKYCPLS-------SEAKKLLEQAAEKLNLSARGYHRILRVARTIADLEGSERITREHIAEA 92 (96)
T ss_pred CccccCCHHHHHhHcCCC-------HHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHhHcCCCCCCHHHHHHH
Confidence 457788888888876554 45556666666555 3468899999999999999999999875
No 73
>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=67.19 E-value=5.7 Score=21.27 Aligned_cols=29 Identities=24% Similarity=0.298 Sum_probs=19.3
Q ss_pred HHHH-HHHHHHHHHHhCCCCccCchhhhcC
Q 038850 50 FLRF-LAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 50 Fi~~-L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
|+.. +=..+-.+|++.|...|+.++|..|
T Consensus 15 fvR~~~r~~~E~~Ar~~G~~~IT~e~v~~A 44 (45)
T PF08369_consen 15 FVRKKLRDAAEKYARERGYDEITVEVVDAA 44 (45)
T ss_dssp HHHHHHHHHHHHHHHHCT-SEE-HHHHHHH
T ss_pred HHHHHHHHHHHHHHHHcCCCeECHHHHHhh
Confidence 4443 4455667788999999999998754
No 74
>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=64.33 E-value=26 Score=28.04 Aligned_cols=59 Identities=19% Similarity=0.094 Sum_probs=42.9
Q ss_pred HHHHHHhhcCcCccccchHHHHHHHHHH-------------HHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 20 GRVKKIIKLDEDINKVTSEALFIVSRST-------------ELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 20 arVkrImK~d~dv~~vs~eA~~~i~~A~-------------ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
..|.+.++.+.....++.+|...+.+-. ..=+..|..+|..+|...++..|+.+||..|
T Consensus 316 ~~i~~~~~r~G~l~~~s~~Av~~Li~~~~R~ag~r~~lsl~~R~L~~llR~A~~iA~~~~~~~I~~ehV~~A 387 (608)
T TIGR00764 316 QFVAQEVKKDGRIPHFTRDAVEEIVREAQRRAGRKDHLTLRLRELGGLVRAAGDIAKSSGKVYVTAEHVLKA 387 (608)
T ss_pred HHHHHHHHHhCCCCcCCHHHHHHHHHHHHHHHhcccccCCCHHHHHHHHHHHHHHHHhcCCceecHHHHHHH
Confidence 4556666666455578888887775421 2446678888988898889999999999764
No 75
>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=58.49 E-value=49 Score=23.72 Aligned_cols=45 Identities=9% Similarity=-0.018 Sum_probs=33.0
Q ss_pred ccchHHHHHHHHHHH------HHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 34 KVTSEALFIVSRSTE------LFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 34 ~vs~eA~~~i~~A~E------lFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
.++.++..+++.-+. ..+..++..|...|...++..|+.+||..|
T Consensus 220 ~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~~~a~~~~~~~it~~~v~~a 270 (365)
T TIGR02928 220 VLDDGVIPLCAALAAQEHGDARKAIDLLRVAGEIAEREGAERVTEDHVEKA 270 (365)
T ss_pred CCChhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHH
Confidence 477777766655443 244557888888888889999999999764
No 76
>COG5248 TAF19 Transcription initiation factor TFIID, subunit TAF13 [Transcription]
Probab=57.31 E-value=51 Score=21.41 Aligned_cols=58 Identities=12% Similarity=0.127 Sum_probs=43.6
Q ss_pred CCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhh
Q 038850 16 EFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDM 75 (78)
Q Consensus 16 ~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di 75 (78)
.|=.--||-+|=.-.|+..-..+...++..-.--++..++..|+..|+ .|..++.+|+
T Consensus 9 nLF~KDikslmYayGDvv~P~~dt~~~L~e~V~dY~~~~ctna~~~Aq--~rnK~k~eDf 66 (126)
T COG5248 9 NLFMKDIKSLMYAYGDVVAPRYDTAEALHEYVLDYMSILCTNAHNMAQ--VRNKTKTEDF 66 (126)
T ss_pred HHHHHHHHHHHHHhCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHH--hcccchHHHH
Confidence 333445677777777887788888888888888889999999999998 4444555554
No 77
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=56.45 E-value=24 Score=27.59 Aligned_cols=63 Identities=17% Similarity=0.276 Sum_probs=47.4
Q ss_pred CCChHHHHHHhhc--CcCccccchHHHHHHHHHHH----HHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 16 EFPVGRVKKIIKL--DEDINKVTSEALFIVSRSTE----LFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 16 ~lP~arVkrImK~--d~dv~~vs~eA~~~i~~A~E----lFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
.++-.-||.|++. ..+--.++.+|...++.--+ -+.-.|..-|+..|+..|+++|..+||..|
T Consensus 360 py~~~EireIi~iRa~ee~i~l~~~Ale~L~~ig~etSLRYa~qLL~pa~iiA~~rg~~~V~~~dVe~a 428 (450)
T COG1224 360 PYSREEIREIIRIRAKEEDIELSDDALEYLTDIGEETSLRYAVQLLTPASIIAKRRGSKRVEVEDVERA 428 (450)
T ss_pred CCCHHHHHHHHHHhhhhhccccCHHHHHHHHhhchhhhHHHHHHhccHHHHHHHHhCCCeeehhHHHHH
Confidence 4556678889885 33334799999998876433 244567888999999999999999998754
No 78
>KOG2680 consensus DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=53.16 E-value=36 Score=26.24 Aligned_cols=58 Identities=19% Similarity=0.383 Sum_probs=41.7
Q ss_pred HHHHHhhc--CcCccccchHHHHHHHHHHH----HHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 21 RVKKIIKL--DEDINKVTSEALFIVSRSTE----LFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 21 rVkrImK~--d~dv~~vs~eA~~~i~~A~E----lFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
-+++|++. ..+-..++.+|..++++..+ -+-..|...|...|.+.+-+++..+||..+
T Consensus 362 d~~~IL~iRc~EEdv~m~~~A~d~Lt~i~~~tsLRYai~Lit~a~~~~~krk~~~v~~~di~r~ 425 (454)
T KOG2680|consen 362 DIKKILRIRCQEEDVEMNPDALDLLTKIGEATSLRYAIHLITAASLVCLKRKGKVVEVDDIERV 425 (454)
T ss_pred HHHHHHHhhhhhhccccCHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhcCceeehhHHHHH
Confidence 46777764 33333689999988876443 245567778888888889999999998753
No 79
>COG5162 Transcription initiation factor TFIID, subunit TAF10 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=50.67 E-value=83 Score=21.87 Aligned_cols=54 Identities=11% Similarity=0.092 Sum_probs=35.4
Q ss_pred cCCCCCCCCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 038850 9 NTETTRPEFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAI 63 (78)
Q Consensus 9 ~~~~~~~~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~ 63 (78)
+-+...+-+|=+-+.=-|-.. +....-.-.--+++.++.-||.+++..||++.+
T Consensus 81 ~mDsy~PliPd~v~DYyl~k~-Gf~~~D~rvKkLl~L~aqKFvsDiA~dayqYsr 134 (197)
T COG5162 81 NMDSYTPLIPDSVTDYYLEKA-GFVTSDQRVKKLLSLLAQKFVSDIAVDAYQYSR 134 (197)
T ss_pred hcccCCCCccHHHHHHHHHhc-CceeccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444455555444444443 222344456678999999999999999999865
No 80
>PF13654 AAA_32: AAA domain; PDB: 3K1J_B.
Probab=49.81 E-value=14 Score=29.09 Aligned_cols=57 Identities=14% Similarity=0.063 Sum_probs=38.3
Q ss_pred HHHHHhhcCcCccccchHHHHHHHHHH-----------HHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 21 RVKKIIKLDEDINKVTSEALFIVSRST-----------ELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 21 rVkrImK~d~dv~~vs~eA~~~i~~A~-----------ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
.|+.+.+.. +..-++.+|+..+-+.. -.-+..|..+|..+|+..+.+.|+.+||.+|
T Consensus 435 ~i~~~~~~~-~L~~~~~~Av~~li~~~~R~~q~kLsl~~~~l~~ll~EA~~~A~~~~~~~I~~~~V~~A 502 (509)
T PF13654_consen 435 FIASICQKE-GLPPFDRSAVARLIEYSARLDQDKLSLRFSWLADLLREANYWARKEGAKVITAEHVEQA 502 (509)
T ss_dssp HHHHHHHHH-SS--BBHHHHHHHHHHHHHCC-SEEE--HHHHHHHHHHHHHHHHHCT-SSB-HHHHHHH
T ss_pred HHHHHHHhC-CCCCCCHHHHHHHHHHHHHHhCCEeCCCHHHHHHHHHHHHHHHHHhCCCccCHHHHHHH
Confidence 455555544 44556777766665433 2256789999999999999999999999875
No 81
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=48.00 E-value=30 Score=25.99 Aligned_cols=59 Identities=12% Similarity=0.170 Sum_probs=42.2
Q ss_pred HHHHHHhhcCcC----ccccchHHHHHHHH--HHH----HHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 20 GRVKKIIKLDED----INKVTSEALFIVSR--STE----LFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 20 arVkrImK~d~d----v~~vs~eA~~~i~~--A~E----lFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
.-+..|++..-+ -+.++.++..+++. |.+ -+..+++..|.+.|...++.+++.+|+..|
T Consensus 193 ~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr~A~eiAe~~~~~~v~~~~v~~a 261 (366)
T COG1474 193 EELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIAEREGSRKVSEDHVREA 261 (366)
T ss_pred HHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHhhCCCCcCHHHHHHH
Confidence 445666654211 12477777777763 322 367789999999999999999999999764
No 82
>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=46.63 E-value=18 Score=24.08 Aligned_cols=52 Identities=19% Similarity=0.139 Sum_probs=31.8
Q ss_pred HHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhh
Q 038850 23 KKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDM 75 (78)
Q Consensus 23 krImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di 75 (78)
.|+++.-.+.. |-++-..-+..-.+-=+-+|..-|...|+.+||..|.+.||
T Consensus 2 e~lFR~aa~Ld-vdK~d~~r~~d~V~~Kl~DLl~va~~~Ak~ngRdvI~~~DL 53 (138)
T PF09123_consen 2 ERLFRKAAGLD-VDKNDAKRYSDFVEKKLYDLLLVAQENAKANGRDVIEPRDL 53 (138)
T ss_dssp HHHHHHHHS-----HHHHHHHHHHHHHHHHHCCCCHHHHHHHTT-SEE-GGGS
T ss_pred hHHHHHHhccC-ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeeccccC
Confidence 34555433332 33444444445555567778888999999999999999997
No 83
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=44.59 E-value=21 Score=26.74 Aligned_cols=29 Identities=21% Similarity=0.279 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 50 FLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 50 Fi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
=+..|+.+|...|.+.++..|+.+|+..|
T Consensus 340 dl~~l~~eA~~~a~~~~~~~i~~~d~~~A 368 (389)
T PRK03992 340 DLKAICTEAGMFAIRDDRTEVTMEDFLKA 368 (389)
T ss_pred HHHHHHHHHHHHHHHcCCCCcCHHHHHHH
Confidence 35678889999998999999999999765
No 84
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=44.42 E-value=20 Score=26.24 Aligned_cols=28 Identities=21% Similarity=0.350 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 51 LRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 51 i~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
+..++..|...|.+.++..|+.+|+..|
T Consensus 332 l~~l~~~A~~~a~~~~~~~i~~~d~~~a 359 (364)
T TIGR01242 332 LKAICTEAGMFAIREERDYVTMDDFIKA 359 (364)
T ss_pred HHHHHHHHHHHHHHhCCCccCHHHHHHH
Confidence 4578889999998999999999999765
No 85
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=42.53 E-value=22 Score=27.52 Aligned_cols=28 Identities=18% Similarity=0.381 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 51 LRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 51 i~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
|..++.+|...|.+.+|..|+.+|+..|
T Consensus 393 I~~i~~eA~~~Alr~~r~~Vt~~D~~~A 420 (438)
T PTZ00361 393 IKAICTEAGLLALRERRMKVTQADFRKA 420 (438)
T ss_pred HHHHHHHHHHHHHHhcCCccCHHHHHHH
Confidence 5678999999999999999999999765
No 86
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=41.39 E-value=24 Score=26.77 Aligned_cols=28 Identities=18% Similarity=0.264 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 51 LRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 51 i~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
|..|+.+|...|.+.++..|+.+|+..|
T Consensus 355 I~~l~~eA~~~A~r~~~~~i~~~df~~A 382 (398)
T PTZ00454 355 IAAICQEAGMQAVRKNRYVILPKDFEKG 382 (398)
T ss_pred HHHHHHHHHHHHHHcCCCccCHHHHHHH
Confidence 6779999999999999999999998765
No 87
>KOG3901 consensus Transcription initiation factor IID subunit [Transcription]
Probab=39.30 E-value=1e+02 Score=19.72 Aligned_cols=52 Identities=15% Similarity=0.181 Sum_probs=38.3
Q ss_pred HHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhh
Q 038850 22 VKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMR 76 (78)
Q Consensus 22 VkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~ 76 (78)
++-+|=.=.|..+--.+.+.++.--.--||..|+..|.... +|..++.+|+.
T Consensus 15 l~~mmYgfGDd~nP~~~tv~~Le~iV~~Yi~elt~~a~~~g---~rgk~~veD~~ 66 (109)
T KOG3901|consen 15 LRSMMYGFGDDVNPYPETVDLLEDIVLEYITELTHAAMEIG---KRGKVKVEDFK 66 (109)
T ss_pred HHHHHHhcCCCCCccHhHHHHHHHHHHHHHHHHHHHHHHhc---ccCceeHHHHH
Confidence 45555555666777788888888888888888988888875 56666767653
No 88
>TIGR01848 PHA_reg_PhaR polyhydroxyalkanoate synthesis repressor PhaR. Poly-B-hydroxyalkanoates are lipidlike carbon/energy storage polymers found in granular inclusions. PhaR is a regulatory protein found in general near other proteins associated with polyhydroxyalkanoate (PHA) granule biosynthesis and utilization. It is found to be a DNA-binding homotetramer that is also capable of binding short chain hydroxyalkanoic acids and PHA granules. PhaR may regulate the expression of itself, of the phasins that coat granules, and of enzymes that direct carbon flux into polymers stored in granules.
Probab=38.38 E-value=91 Score=19.91 Aligned_cols=40 Identities=18% Similarity=0.194 Sum_probs=31.9
Q ss_pred CCCCCCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHH
Q 038850 12 TTRPEFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRF 53 (78)
Q Consensus 12 ~~~~~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~ 53 (78)
.+..-||.+-++.|++...+. ++.-.+-.+.++.+.|...
T Consensus 61 ~g~~~lp~~~L~qlIr~yg~~--~q~~~~~yLe~s~~~f~~~ 100 (107)
T TIGR01848 61 GGEPVLSTDFLTQIIRFYGGS--MQSFVPQYLEASLEMFAKQ 100 (107)
T ss_pred CCCCCCCHHHHHHHHHHhChh--HHHHHHHHHHHHHHHHHHH
Confidence 477999999999999987663 5666667788888888764
No 89
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=37.79 E-value=87 Score=25.50 Aligned_cols=47 Identities=15% Similarity=0.022 Sum_probs=32.7
Q ss_pred ccccchHHHHHHHHHH-------------HHHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 32 INKVTSEALFIVSRST-------------ELFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 32 v~~vs~eA~~~i~~A~-------------ElFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
...++.+|...+-+-. ..=+..|..+|..+|+..+++.++.+|+.+|
T Consensus 337 l~~f~~eAVa~LI~~~~R~ag~r~~lsl~~~~l~~l~r~a~~~a~~~~~~~i~~~~v~~a 396 (637)
T PRK13765 337 IPHFDRDAVEEIIREAKRRAGRKGHLTLKLRDLGGLVRVAGDIARSEGAELTTAEHVLEA 396 (637)
T ss_pred CCCCCHHHHHHHHHHHHHHhCCccccccCHHHHHHHHHHHHHHHHhhccceecHHHHHHH
Confidence 3456777666554322 2234558888999999999999999988654
No 90
>TIGR00368 Mg chelatase-related protein. The N-terminal end matches very strongly a pfam Mg_chelatase domain.
Probab=36.50 E-value=68 Score=25.18 Aligned_cols=58 Identities=10% Similarity=0.077 Sum_probs=42.0
Q ss_pred CCCCChHHHHHHhhcCcCccccchHHHHHHHHHHHHH------HHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 14 RPEFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELF------LRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 14 ~~~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElF------i~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
+.++|...+++... ++.++..++..+.+.| ...+.+-|+-+|.-.++..|..+||..|
T Consensus 432 N~~l~~~~l~~~~~-------l~~~~~~~l~~a~~~~~lS~R~~~rilrvArTiAdL~g~~~i~~~hv~eA 495 (499)
T TIGR00368 432 NADLNSDEIEQFCK-------LSAIDANDLEGALNKLGLSSRATHRILKVARTIADLKEEKNISREHLAEA 495 (499)
T ss_pred cccCCHHHHHhhcC-------CCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHhhcCCCCCCHHHHHHH
Confidence 44555555555433 3556666666666665 4568889999999999999999999875
No 91
>COG5251 TAF40 Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=36.27 E-value=28 Score=24.27 Aligned_cols=65 Identities=12% Similarity=0.081 Sum_probs=43.8
Q ss_pred CCCCCCChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCccCchhhhc
Q 038850 12 TTRPEFPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIE-KKRKTIKLGDMRV 77 (78)
Q Consensus 12 ~~~~~lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~-~~rkti~~~Di~~ 77 (78)
.+...||-+-||++.-.--+ ..|+....+++.--...|+.++.+-|...-.+ ....-+.++|+..
T Consensus 111 Frrt~lnKt~VKKlastV~n-QtVspNi~I~l~g~~KVfvGEiIElA~~Vq~~w~~sgpl~p~h~re 176 (199)
T COG5251 111 FRRTSLNKTQVKKLASTVAN-QTVSPNIRIFLQGVGKVFVGEIIELAMIVQNKWLTSGPLIPFHKRE 176 (199)
T ss_pred HHhcCCCHHHHHHHHHHHhc-cccCCCeeeeeechhHHHHHHHHHHHHHHHHHhcccCCCChHHHHH
Confidence 45788999999999886432 35677777777777788888888877655432 2333455555543
No 92
>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=35.63 E-value=83 Score=23.39 Aligned_cols=56 Identities=14% Similarity=0.161 Sum_probs=37.8
Q ss_pred HHHHHhhcCcCccccchHHHHHHHHHHHHHHH-------HHHHHHHHHHHhCCCCccCchhhhc
Q 038850 21 RVKKIIKLDEDINKVTSEALFIVSRSTELFLR-------FLAEKSAEAAIEKKRKTIKLGDMRV 77 (78)
Q Consensus 21 rVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~-------~L~~~A~~~a~~~~rkti~~~Di~~ 77 (78)
.|....+.-++| .|+.+...++...+.-+-. .|...|--.|.-+||..++.+||..
T Consensus 242 ~I~~a~~~~~~V-~v~d~~~~~i~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~~dDv~~ 304 (337)
T TIGR02030 242 KIVNAQNLLPQV-TIPYDVLVKVAELCAELDVDGLRGELTLNRAAKALAAFEGRTEVTVDDIRR 304 (337)
T ss_pred HHHHHHHHhccC-cCCHHHHHHHHHHHHHHCCCCCcHHHHHHHHHHHHHHHcCCCCCCHHHHHH
Confidence 344444444555 4777777766665544432 2667777788889999999999975
No 93
>KOG0785 consensus Isocitrate dehydrogenase, alpha subunit [Amino acid transport and metabolism]
Probab=34.70 E-value=90 Score=23.85 Aligned_cols=36 Identities=25% Similarity=0.158 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchh
Q 038850 39 ALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGD 74 (78)
Q Consensus 39 A~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~D 74 (78)
.+..|-..+|.=-..+++-||++|++++|+.++.-|
T Consensus 168 VvqsiK~IT~~AS~Ria~~AF~yAr~~~R~~vtvvH 203 (365)
T KOG0785|consen 168 VVQSIKLITEAASRRIAEYAFEYARQNGRKRVTVVH 203 (365)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcCCCceEEEe
Confidence 555555556666678999999999999999988644
No 94
>PF05054 DUF673: Protein of unknown function (DUF673); InterPro: IPR007748 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf109; it is a family of uncharacterised viral proteins.
Probab=33.99 E-value=64 Score=24.67 Aligned_cols=36 Identities=22% Similarity=0.274 Sum_probs=27.8
Q ss_pred CCChHHHHHHhhcCcCcc--ccchHHHHHHHHHHHHHH
Q 038850 16 EFPVGRVKKIIKLDEDIN--KVTSEALFIVSRSTELFL 51 (78)
Q Consensus 16 ~lP~arVkrImK~d~dv~--~vs~eA~~~i~~A~ElFi 51 (78)
.|--.|+||+||.|.... .+.......+..|.|++.
T Consensus 211 eL~wE~~RRllkg~~~~~C~~~nr~Sl~Yik~a~elL~ 248 (357)
T PF05054_consen 211 ELKWERTRRLLKGDVSNQCNIVNRPSLQYIKDAQELLG 248 (357)
T ss_pred HhhhHHHHHHHcCCCCCcCceechHHHHHHHHHHHHhC
Confidence 455679999999885433 577788999999988874
No 95
>smart00350 MCM minichromosome maintenance proteins.
Probab=33.90 E-value=1.4e+02 Score=23.17 Aligned_cols=64 Identities=17% Similarity=0.114 Sum_probs=47.1
Q ss_pred CCCChHHHHHHhhcCcC-c-cccchHHHHHHHHHHHH-------------------HHHHHHHHHHHHHHhCCCCccCch
Q 038850 15 PEFPVGRVKKIIKLDED-I-NKVTSEALFIVSRSTEL-------------------FLRFLAEKSAEAAIEKKRKTIKLG 73 (78)
Q Consensus 15 ~~lP~arVkrImK~d~d-v-~~vs~eA~~~i~~A~El-------------------Fi~~L~~~A~~~a~~~~rkti~~~ 73 (78)
..++..-+++.+..-.. + ..+|.++..++...+.. .++.|...|--.|+-..|..++.+
T Consensus 416 ~~~~~~~l~~yi~~ar~~~~P~ls~~~~~~i~~~y~~~R~~~~~~~~~~~~~~t~R~l~sliRla~A~A~l~~r~~V~~~ 495 (509)
T smart00350 416 VPISQEFLRKYIAYAREKIKPKLSEEAAEKLVKAYVDLRKEDSQSEARSSIPITVRQLESIIRLSEAHAKMRLSDVVEEA 495 (509)
T ss_pred ccCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHhcccccccccccccCcCHHHHHHHHHHHHHHHHHcCCCccCHH
Confidence 46888889988865433 2 35788888777554322 236777888888999999999999
Q ss_pred hhhcC
Q 038850 74 DMRVA 78 (78)
Q Consensus 74 Di~~A 78 (78)
|+..|
T Consensus 496 Dv~~a 500 (509)
T smart00350 496 DVEEA 500 (509)
T ss_pred HHHHH
Confidence 99765
No 96
>KOG0784 consensus Isocitrate dehydrogenase, gamma subunit [Amino acid transport and metabolism]
Probab=33.69 E-value=35 Score=26.17 Aligned_cols=28 Identities=21% Similarity=0.106 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHHHHHhCCCCccCchh
Q 038850 47 TELFLRFLAEKSAEAAIEKKRKTIKLGD 74 (78)
Q Consensus 47 ~ElFi~~L~~~A~~~a~~~~rkti~~~D 74 (78)
+..--+.+++-||++|...|||.++.=|
T Consensus 182 T~~kseRIaryAF~yA~k~gRKkVTaVH 209 (375)
T KOG0784|consen 182 TRFKSERIARYAFEYAKKNGRKKVTAVH 209 (375)
T ss_pred hhhhhHHHHHHHHHHHHHhCCceEEEEe
Confidence 3444568999999999999999998654
No 97
>PRK09862 putative ATP-dependent protease; Provisional
Probab=31.52 E-value=99 Score=24.48 Aligned_cols=27 Identities=15% Similarity=0.051 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 52 RFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 52 ~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
..|.+-|+-.|.-.++..|+.+||..|
T Consensus 462 ~rlLrvARTiADL~g~~~V~~~hv~eA 488 (506)
T PRK09862 462 QRLLKVARTIADIDQSDIITRQHLQEA 488 (506)
T ss_pred HHHHHHHHHHHHHcCCCCCCHHHHHHH
Confidence 458888889999999999999999875
No 98
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=30.61 E-value=1.2e+02 Score=24.37 Aligned_cols=58 Identities=12% Similarity=0.072 Sum_probs=42.8
Q ss_pred HHHHHHhhcCcCccccchHHHHHHHHHHHHHH-------HHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 20 GRVKKIIKLDEDINKVTSEALFIVSRSTELFL-------RFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 20 arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi-------~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
.+|.+.-+.-+++ .++.+....+..++..|- ..+.+.|.-+|.-.||..|+.+||..|
T Consensus 182 ~~I~~AR~rl~~v-~v~~~~l~~i~~~~~~~gv~S~Ra~i~llraARa~AaL~Gr~~V~~~dv~~A 246 (584)
T PRK13406 182 DDIAAARARLPAV-GPPPEAIAALCAAAAALGIASLRAPLLALRAARAAAALAGRTAVEEEDLALA 246 (584)
T ss_pred HHHHHHHHHHccC-CCCHHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHHHcCCCCCCHHHHHHH
Confidence 4555554443454 578888877777666664 358888899999999999999999864
No 99
>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=30.39 E-value=1.8e+02 Score=23.41 Aligned_cols=49 Identities=16% Similarity=0.186 Sum_probs=36.0
Q ss_pred CcCccccchHHHHHHHHHHHHHH-------HHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 29 DEDINKVTSEALFIVSRSTELFL-------RFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 29 d~dv~~vs~eA~~~i~~A~ElFi-------~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
.+.| .++.+...++...+.-+- ..+...|.-.|.-.+|..|+.+||..|
T Consensus 245 ~~~V-~is~~~~~~l~~~~~~~~i~s~Ra~i~~~r~Ara~AaL~gr~~V~~~Dv~~A 300 (633)
T TIGR02442 245 LPSV-RISDSLIRFISELCIEFGVDGHRADIVMARAARALAALDGRRRVTAEDVREA 300 (633)
T ss_pred CCCC-CCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHcCCCcCCHHHHHHH
Confidence 4444 578887777777665542 346777778888899999999999764
No 100
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=30.31 E-value=2e+02 Score=21.33 Aligned_cols=60 Identities=12% Similarity=-0.001 Sum_probs=43.1
Q ss_pred CChHHHHHHhhcCcCccccchHHHHHHHHHHHHHHH-------HHHHHHHHHHHhCCCCccCchhhhc
Q 038850 17 FPVGRVKKIIKLDEDINKVTSEALFIVSRSTELFLR-------FLAEKSAEAAIEKKRKTIKLGDMRV 77 (78)
Q Consensus 17 lP~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~-------~L~~~A~~~a~~~~rkti~~~Di~~ 77 (78)
+-..+|...-+.-+.| .++.+...++...+.-+-. .|...|--.|.-+||..|+.+||..
T Consensus 235 ~~~~~i~~a~~~~~~V-~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~~aA~a~A~l~Gr~~V~~~Di~~ 301 (334)
T PRK13407 235 QLRGRILGARARLPQL-KTPNTVLHDCAALCIALGSDGLRGELTLLRAARALAAFEGAEAVGRSHLRS 301 (334)
T ss_pred CCHHHHHHHHHhcCCc-ccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHHcCCCeeCHHHHHH
Confidence 3346677776666776 4788777777666544431 2777888888889999999999964
No 101
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=29.98 E-value=2.1e+02 Score=21.49 Aligned_cols=59 Identities=8% Similarity=0.023 Sum_probs=42.2
Q ss_pred hHHHHHHhhcCcCccccchHHHHHHHHHHHHHHH-------HHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 19 VGRVKKIIKLDEDINKVTSEALFIVSRSTELFLR-------FLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 19 ~arVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~-------~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
..+|....+.-+.| .|+.+...++...+.-+-. .|...|--.|.-.||..++++||..+
T Consensus 253 ~~~I~~ar~~~~~V-~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~pdDv~~~ 318 (350)
T CHL00081 253 RSKIVAAQNLLPKV-EIDYDLRVKISQICSELDVDGLRGDIVTNRAAKALAAFEGRTEVTPKDIFKV 318 (350)
T ss_pred HHHHHHHHHhcCCC-ccCHHHHHHHHHHHHHHCCCCChHHHHHHHHHHHHHHHcCCCCCCHHHHHHH
Confidence 45666666666676 5788877777766655432 36667777777899999999999753
No 102
>KOG3902 consensus Histone acetyltransferase PCAF/SAGA, subunit SUPT3H/SPT3 [Transcription]
Probab=28.87 E-value=2.3e+02 Score=21.53 Aligned_cols=56 Identities=13% Similarity=0.080 Sum_probs=44.3
Q ss_pred HHHHHhhcCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCccCchhhh
Q 038850 21 RVKKIIKLDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIEKKRKTIKLGDMR 76 (78)
Q Consensus 21 rVkrImK~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~ 76 (78)
-|..+|=...++..-+.|...++.-..-==+..+.-.|.+.+...|.+.|++.|+.
T Consensus 29 eiQqmmf~sGei~~P~pett~Lved~V~gqvie~l~qa~eia~lrgsr~Itpedli 84 (352)
T KOG3902|consen 29 EIQQMMFQSGEIPDPLPETTNLVEDNVRGQVIESLVQANEIADLRGSRSITPEDLI 84 (352)
T ss_pred HHHHHHHHhCCCCCCcHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCccccChHHHH
Confidence 45677777888888888888888766555556677788899999999999999873
No 103
>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=28.83 E-value=29 Score=17.79 Aligned_cols=20 Identities=20% Similarity=0.210 Sum_probs=14.0
Q ss_pred HHHHHHhCCCCccCchhhhc
Q 038850 58 SAEAAIEKKRKTIKLGDMRV 77 (78)
Q Consensus 58 A~~~a~~~~rkti~~~Di~~ 77 (78)
|.+.|++.+...|..+||..
T Consensus 1 A~~~A~~~~~~~i~~eHlL~ 20 (53)
T PF02861_consen 1 AQELARERGHQYISPEHLLL 20 (53)
T ss_dssp HHHHHHHTTBSSE-HHHHHH
T ss_pred CHHHHHHcCCCcccHHHHHH
Confidence 45677778888888888754
No 104
>COG1067 LonB Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]
Probab=28.80 E-value=1.4e+02 Score=24.52 Aligned_cols=57 Identities=21% Similarity=0.223 Sum_probs=40.7
Q ss_pred HHHHhhcCcCccccchHHHHHHHHHHHH-------------HHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 22 VKKIIKLDEDINKVTSEALFIVSRSTEL-------------FLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 22 VkrImK~d~dv~~vs~eA~~~i~~A~El-------------Fi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
+-+-+..|.++.-++.+|..-+-+-++. =+..|...|...|...+++-|+..||..|
T Consensus 326 ~~q~v~~d~~ip~~~~~Av~~li~~a~R~Ag~~~~Ltl~~rdl~~lv~~A~~ia~~~~~~~I~ae~Ve~a 395 (647)
T COG1067 326 YVQELARDGNIPHLDKDAVEELIREAARRAGDQNKLTLRLRDLGNLVREAGDIAVSEGRKLITAEDVEEA 395 (647)
T ss_pred HHHHHHhcCCCCCCCHHHHHHHHHHHHHhccccceeccCHHHHHHHHHHhhHHHhcCCcccCcHHHHHHH
Confidence 3344455666777777777766554432 34557889999999999999999998754
No 105
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=28.54 E-value=41 Score=26.08 Aligned_cols=37 Identities=27% Similarity=0.442 Sum_probs=29.4
Q ss_pred HHHHHHHHH----HHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 42 IVSRSTELF----LRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 42 ~i~~A~ElF----i~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
.+++.++-| +..++.+|..+|-+..|..++.+|+..|
T Consensus 348 ~la~~~~g~sGAdlkaictEAGm~AiR~~R~~Vt~~DF~~A 388 (406)
T COG1222 348 LLARLTEGFSGADLKAICTEAGMFAIRERRDEVTMEDFLKA 388 (406)
T ss_pred HHHHhcCCCchHHHHHHHHHHhHHHHHhccCeecHHHHHHH
Confidence 445555444 6679999999999999999999998764
No 106
>KOG3334 consensus Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=28.30 E-value=63 Score=21.79 Aligned_cols=29 Identities=21% Similarity=0.310 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 50 FLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 50 Fi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
++..+...|.-++...++.+|..+||..|
T Consensus 46 Ytt~vL~DA~vys~HA~ka~i~~eDVrlA 74 (148)
T KOG3334|consen 46 YTTTVLDDAKVYSSHAKKATIDAEDVRLA 74 (148)
T ss_pred HHHHHHHHHHHHHHhccCCCCcHHHHHHH
Confidence 45668888999999999999999999754
No 107
>PF04214 DUF411: Protein of unknown function, DUF; InterPro: IPR007332 The function of the members of this bacterial protein family is unknown. Some members may be involved in conferring cation resistance.
Probab=27.15 E-value=59 Score=19.19 Aligned_cols=20 Identities=15% Similarity=0.406 Sum_probs=16.8
Q ss_pred CCChHHHHHHhhcCcCcccc
Q 038850 16 EFPVGRVKKIIKLDEDINKV 35 (78)
Q Consensus 16 ~lP~arVkrImK~d~dv~~v 35 (78)
+.|.+-|+|+++..|++.-+
T Consensus 39 HVPa~~I~~lL~e~P~~~Gl 58 (70)
T PF04214_consen 39 HVPADDIKRLLAEKPDARGL 58 (70)
T ss_pred cCCHHHHHHHHhcCCCceEE
Confidence 57999999999999986544
No 108
>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]
Probab=26.70 E-value=1.5e+02 Score=22.95 Aligned_cols=64 Identities=20% Similarity=0.248 Sum_probs=43.7
Q ss_pred CCCCChHHHHHHhhcCc--CccccchHHHHHHHH----HHHHHHHHHHHHHHHHHHhCCCCccCchhhhc
Q 038850 14 RPEFPVGRVKKIIKLDE--DINKVTSEALFIVSR----STELFLRFLAEKSAEAAIEKKRKTIKLGDMRV 77 (78)
Q Consensus 14 ~~~lP~arVkrImK~d~--dv~~vs~eA~~~i~~----A~ElFi~~L~~~A~~~a~~~~rkti~~~Di~~ 77 (78)
...+|-+-++.|++..- +.-.+..+|..+++. -.--+.-.|..-+...|+-.||+.|..+||..
T Consensus 364 t~~y~~~e~r~Ii~~Ra~~E~l~~~e~a~~~l~~~gt~tsLRy~vqLl~p~~~~ak~~g~~~i~v~dvee 433 (456)
T KOG1942|consen 364 TLPYDEEEIRQIIKIRAQVEGLQVEEEALDLLAEIGTSTSLRYAVQLLTPASILAKTNGRKEISVEDVEE 433 (456)
T ss_pred eccCCHHHHHHHHHHHHhhhcceecHHHHHHHHhhccchhHHHHHHhcCHHHHHHHHcCCceeecccHHH
Confidence 34567778888888643 333677788777755 22233444566677788999999999999864
No 109
>PF00180 Iso_dh: Isocitrate/isopropylmalate dehydrogenase; InterPro: IPR024084 Isocitrate dehydrogenase (IDH) [, ] is an important enzyme of carbohydrate metabolism which catalyses the oxidative decarboxylation of isocitrate into alpha-ketoglutarate. IDH is either dependent on NAD+ (1.1.1.41 from EC) or on NADP+ (1.1.1.42 from EC). In eukaryotes there are at least three isozymes of IDH: two are located in the mitochondrial matrix (one NAD+-dependent, the other NADP+-dependent), while the third one (also NADP+-dependent) is cytoplasmic. In Escherichia coli the activity of a NADP+-dependent form of the enzyme is controlled by the phosphorylation of a serine residue; the phosphorylated form of IDH is completely inactivated. 3-isopropylmalate dehydrogenase (1.1.1.85 from EC) (IMDH) [, ] catalyses the third step in the biosynthesis of leucine in bacteria and fungi, the oxidative decarboxylation of 3-isopropylmalate into 2-oxo-4-methylvalerate. Tartrate dehydrogenase (1.1.1.93 from EC) [] catalyses the reduction of tartrate to oxaloglycolate. These enzymes are evolutionary related. To this family also belongs the enzyme tartrate dehydrogenase, which shows strong homology to prokaryotic isopropylmalate dehydrogenases and, to a lesser extent, isocitrate dehydrogenase []. This entry represents a structural domain found in all types of isocitrate dehydrogenase, and in isopropylmalate dehydrogenase and tartrate dehydrogenase. The crystal structure of Escherichia coli isopropylmalate dehydrogenase has been described []. ; GO: 0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor, 0055114 oxidation-reduction process; PDB: 1WAL_A 1CNZ_B 2D4V_C 1CM7_A 4AOY_D 3FMX_X 3FLK_C 1A05_A 1X0L_B 4F7I_D ....
Probab=26.38 E-value=58 Score=24.27 Aligned_cols=23 Identities=22% Similarity=0.219 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHhCCCCccCch
Q 038850 51 LRFLAEKSAEAAIEKKRKTIKLG 73 (78)
Q Consensus 51 i~~L~~~A~~~a~~~~rkti~~~ 73 (78)
++.+++-|+++|++.+||.|+.-
T Consensus 162 ~eRi~r~AF~~A~~r~~k~Vt~v 184 (348)
T PF00180_consen 162 IERIARFAFEYARKRGRKKVTVV 184 (348)
T ss_dssp HHHHHHHHHHHHHHTTTSEEEEE
T ss_pred hhHHHHHHHHHHHHhCCceEEEE
Confidence 56888999999999988887643
No 110
>PHA02265 hypothetical protein
Probab=26.33 E-value=1.7e+02 Score=18.22 Aligned_cols=47 Identities=11% Similarity=0.200 Sum_probs=34.8
Q ss_pred cCcCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHh----CCCCccCchhh
Q 038850 28 LDEDINKVTSEALFIVSRSTELFLRFLAEKSAEAAIE----KKRKTIKLGDM 75 (78)
Q Consensus 28 ~d~dv~~vs~eA~~~i~~A~ElFi~~L~~~A~~~a~~----~~rkti~~~Di 75 (78)
.-|+|...|+.....|..+++-|- .|+..+....+. .---||.|.|.
T Consensus 20 ~p~~v~~tsk~~a~~i~~~l~kfk-~ls~~~~k~t~kyl~g~eilti~y~~~ 70 (103)
T PHA02265 20 FPKEVDITSKSTAIAINQILDKFK-TLTEQAGKITRKYLEGQEILTIDYEYY 70 (103)
T ss_pred CCCccccccchhHHHHHHHHHHHH-HHHHHHhHHHHHHcCcCeeEEeeHHHH
Confidence 357888999999999999999984 678888777663 22345666554
No 111
>TIGR00648 recU recombination protein U. The Bacillus protein has been shown to be required for DNA recombination and repair. RJD 11/20/00
Probab=24.05 E-value=50 Score=22.59 Aligned_cols=21 Identities=14% Similarity=0.093 Sum_probs=16.5
Q ss_pred HHHHHHHHhCCCCccCchhhh
Q 038850 56 EKSAEAAIEKKRKTIKLGDMR 76 (78)
Q Consensus 56 ~~A~~~a~~~~rkti~~~Di~ 76 (78)
..-|+.+...|||+|.+++|.
T Consensus 126 ~~~w~~~~~~GrKSi~~~~i~ 146 (169)
T TIGR00648 126 FYFWKRKEKNGRKSIRKDEIE 146 (169)
T ss_pred HHHHHHHhhCCCCcccHHHHH
Confidence 345666677899999999985
No 112
>PHA00687 hypothetical protein
Probab=23.69 E-value=21 Score=19.80 Aligned_cols=15 Identities=40% Similarity=0.417 Sum_probs=8.7
Q ss_pred CCCChHHHHHHhhcC
Q 038850 15 PEFPVGRVKKIIKLD 29 (78)
Q Consensus 15 ~~lP~arVkrImK~d 29 (78)
..=|++|||-|-|..
T Consensus 29 radplarvkaiekat 43 (56)
T PHA00687 29 RADPLARVKAIEKAT 43 (56)
T ss_pred ccChHHHHHHHHHHH
Confidence 344667776665543
No 113
>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=23.41 E-value=2.5e+02 Score=22.06 Aligned_cols=44 Identities=18% Similarity=0.162 Sum_probs=30.7
Q ss_pred ccchHHHHHHHHHHH--HHHHHHHHHHHHHHHhCCCCccCchhhhc
Q 038850 34 KVTSEALFIVSRSTE--LFLRFLAEKSAEAAIEKKRKTIKLGDMRV 77 (78)
Q Consensus 34 ~vs~eA~~~i~~A~E--lFi~~L~~~A~~~a~~~~rkti~~~Di~~ 77 (78)
.++.++..++..-+. -.+..+...|...|...++++|+.+||..
T Consensus 282 ~is~~al~~I~~y~~n~Rel~nll~~Aa~~A~~~~~~~It~~dI~~ 327 (531)
T TIGR02902 282 NLEKHALELIVKYASNGREAVNIVQLAAGIALGEGRKRILAEDIEW 327 (531)
T ss_pred CcCHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhCCCcEEcHHHHHH
Confidence 577888777655443 22344666677777778899999999864
No 114
>PRK07006 isocitrate dehydrogenase; Reviewed
Probab=23.11 E-value=76 Score=24.49 Aligned_cols=23 Identities=30% Similarity=0.342 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHhCCCCccCc
Q 038850 50 FLRFLAEKSAEAAIEKKRKTIKL 72 (78)
Q Consensus 50 Fi~~L~~~A~~~a~~~~rkti~~ 72 (78)
=++.++..|+++|++.+||.|+.
T Consensus 198 ~~eRi~r~AFe~A~~r~rkkVt~ 220 (409)
T PRK07006 198 GTERLVRAAIEYAIDNDRKSVTL 220 (409)
T ss_pred HHHHHHHHHHHHHHhcCCCcEEE
Confidence 36788999999999888876654
No 115
>TIGR00183 prok_nadp_idh isocitrate dehydrogenase, NADP-dependent, prokaryotic type. Prokaryotic NADP-dependent isocitrate dehydrogenases resemble their NAD-dependent counterparts and 3-isopropylmalate dehydrogenase (an NAD-dependent enzyme) more closely than they resemble eukaryotic NADP-dependent isocitrate dehydrogenases.
Probab=22.30 E-value=77 Score=24.47 Aligned_cols=23 Identities=35% Similarity=0.416 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHhCCCCccCch
Q 038850 51 LRFLAEKSAEAAIEKKRKTIKLG 73 (78)
Q Consensus 51 i~~L~~~A~~~a~~~~rkti~~~ 73 (78)
++.+++-|+++|++.+|++++.-
T Consensus 206 ~~Riar~AFe~A~~r~rk~Vt~v 228 (416)
T TIGR00183 206 TKRLVRAAIEYAIENDRKSVTLV 228 (416)
T ss_pred HHHHHHHHHHHHHhcCCCeEEEE
Confidence 56788999999998877766543
No 116
>PLN00123 isocitrate dehydrogenase (NAD+)
Probab=22.12 E-value=82 Score=23.99 Aligned_cols=23 Identities=22% Similarity=0.137 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHhCCCCccCc
Q 038850 50 FLRFLAEKSAEAAIEKKRKTIKL 72 (78)
Q Consensus 50 Fi~~L~~~A~~~a~~~~rkti~~ 72 (78)
=++.++..|+++|++.+||.|+.
T Consensus 169 ~~eRIar~AF~~A~~r~rkkVt~ 191 (360)
T PLN00123 169 CSERIAKYAFEYAYLNNRKKVTA 191 (360)
T ss_pred HHHHHHHHHHHHHHhcCCCcEEE
Confidence 36688999999998877776654
No 117
>PRK08997 isocitrate dehydrogenase; Provisional
Probab=21.99 E-value=80 Score=23.71 Aligned_cols=22 Identities=18% Similarity=0.132 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHhCCCCccCc
Q 038850 51 LRFLAEKSAEAAIEKKRKTIKL 72 (78)
Q Consensus 51 i~~L~~~A~~~a~~~~rkti~~ 72 (78)
++.+++-|++.|++.+|+.|+.
T Consensus 149 ~eRi~r~Af~~A~~r~~~~Vt~ 170 (334)
T PRK08997 149 AERIVRFAYELARKEGRKKVTA 170 (334)
T ss_pred HHHHHHHHHHHHHhcCCCeEEE
Confidence 5678899999999887776654
No 118
>PRK06451 isocitrate dehydrogenase; Validated
Probab=21.75 E-value=84 Score=24.34 Aligned_cols=27 Identities=22% Similarity=0.300 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHHHHhCCCCccCchh
Q 038850 48 ELFLRFLAEKSAEAAIEKKRKTIKLGD 74 (78)
Q Consensus 48 ElFi~~L~~~A~~~a~~~~rkti~~~D 74 (78)
..=++.++..|+++|++.+||.|+.-|
T Consensus 195 ~~~~eRIar~AF~~A~~r~~kkVt~v~ 221 (412)
T PRK06451 195 KFKTQRIARMAIKYAIDHKRKKVTIMH 221 (412)
T ss_pred HHHHHHHHHHHHHHHHhcCCCcEEEEE
Confidence 344667899999999998887666433
No 119
>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]
Probab=21.61 E-value=2.6e+02 Score=20.67 Aligned_cols=46 Identities=15% Similarity=0.283 Sum_probs=40.7
Q ss_pred cccchHHHHHHHHHHH---HHHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 33 NKVTSEALFIVSRSTE---LFLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 33 ~~vs~eA~~~i~~A~E---lFi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
...+.+|..++..+.+ .-|..++..|...|-..++..|+...+..+
T Consensus 221 ~l~~~~a~~~i~~~sqg~P~lin~~~~~Al~~a~~a~~~~v~~a~~~~~ 269 (269)
T COG3267 221 PLFSDDALLLIHEASQGIPRLINNLATLALDAAYSAGEDGVSEAEIKNA 269 (269)
T ss_pred ccCChhHHHHHHHHhccchHHHHHHHHHHHHHHHHcCCCccchhhcccC
Confidence 4689999999999988 778999999999999999999998887654
No 120
>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=21.60 E-value=1.8e+02 Score=23.25 Aligned_cols=60 Identities=17% Similarity=0.232 Sum_probs=37.4
Q ss_pred ChHHHHHHhhcCcCccccchHHHHH-HHHHHHHHHH------HHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 18 PVGRVKKIIKLDEDINKVTSEALFI-VSRSTELFLR------FLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 18 P~arVkrImK~d~dv~~vs~eA~~~-i~~A~ElFi~------~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
...+|...-+.-+.| .|+.+.... +..+.++-+. .+...|--.|.-.+|..++.+||..|
T Consensus 188 ~~~~i~~ar~~~~~V-~i~~~~~~~l~~~~~~~gv~s~Ra~i~~~r~ArA~Aal~gr~~V~~~Dv~~a 254 (589)
T TIGR02031 188 LRGQIEAARELLPQV-TISAEQVKELVLTAASLGISGHRADLFAVRAAKAHAALHGRTEVTEEDLKLA 254 (589)
T ss_pred HHHHHHHHHHhcCCc-cCCHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHHhCCCCCCHHHHHHH
Confidence 334454444555665 477776643 3444443332 25566666777789999999999764
No 121
>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=21.35 E-value=87 Score=24.07 Aligned_cols=28 Identities=29% Similarity=0.344 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 51 LRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 51 i~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
+..|+++|...+.+.+++.|+.+|+..|
T Consensus 264 l~~l~~eA~~~a~~~~~~~i~~~~l~~a 291 (495)
T TIGR01241 264 LANLLNEAALLAARKNKTEITMNDIEEA 291 (495)
T ss_pred HHHHHHHHHHHHHHcCCCCCCHHHHHHH
Confidence 4567777777777778888999998754
No 122
>PRK03437 3-isopropylmalate dehydrogenase; Provisional
Probab=21.30 E-value=85 Score=23.64 Aligned_cols=25 Identities=20% Similarity=0.251 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHhCCCCccCc
Q 038850 48 ELFLRFLAEKSAEAAIEKKRKTIKL 72 (78)
Q Consensus 48 ElFi~~L~~~A~~~a~~~~rkti~~ 72 (78)
..=++.+++.|++.|++.+||.|+.
T Consensus 159 r~~~~RIa~~AF~~A~~r~~k~Vt~ 183 (344)
T PRK03437 159 AFGVERVVRDAFERAQKRPRKHLTL 183 (344)
T ss_pred HHHHHHHHHHHHHHHHhCCCCeEEE
Confidence 3346688999999999887776653
No 123
>PRK10733 hflB ATP-dependent metalloprotease; Reviewed
Probab=20.71 E-value=88 Score=25.19 Aligned_cols=29 Identities=17% Similarity=0.181 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHhCCCCccCchhhhcC
Q 038850 50 FLRFLAEKSAEAAIEKKRKTIKLGDMRVA 78 (78)
Q Consensus 50 Fi~~L~~~A~~~a~~~~rkti~~~Di~~A 78 (78)
=+..|+++|...|.+.+++.|+..|+..|
T Consensus 360 dl~~l~~eAa~~a~r~~~~~i~~~d~~~a 388 (644)
T PRK10733 360 DLANLVNEAALFAARGNKRVVSMVEFEKA 388 (644)
T ss_pred HHHHHHHHHHHHHHHcCCCcccHHHHHHH
Confidence 46678888888888889999999998653
No 124
>PLN00118 isocitrate dehydrogenase (NAD+)
Probab=20.44 E-value=89 Score=23.90 Aligned_cols=22 Identities=23% Similarity=0.072 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHhCCCCccCc
Q 038850 51 LRFLAEKSAEAAIEKKRKTIKL 72 (78)
Q Consensus 51 i~~L~~~A~~~a~~~~rkti~~ 72 (78)
++.+++.|+++|++.+||.|+.
T Consensus 186 ~eRIar~AF~~A~~r~~k~Vt~ 207 (372)
T PLN00118 186 SLRVAEYAFHYAKTHGRKRVSA 207 (372)
T ss_pred HHHHHHHHHHHHHHcCCCeEEE
Confidence 4678999999999888776653
Done!