Query 028727
Match_columns 205
No_of_seqs 133 out of 586
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 16:03:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028727.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028727hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1657 CCAAT-binding factor, 99.9 4.5E-22 9.7E-27 174.0 5.2 95 99-193 65-159 (236)
2 PF00808 CBFD_NFYB_HMF: Histon 99.8 8.3E-20 1.8E-24 129.0 7.8 64 108-171 2-65 (65)
3 COG5208 HAP5 CCAAT-binding fac 99.8 2E-20 4.3E-25 163.3 3.8 86 102-187 103-188 (286)
4 KOG1659 Class 2 transcription 99.8 1.6E-19 3.4E-24 156.1 5.1 87 100-186 5-91 (224)
5 COG5247 BUR6 Class 2 transcrip 99.7 2.8E-18 6.1E-23 134.3 4.4 83 103-185 18-100 (113)
6 KOG1658 DNA polymerase epsilon 99.3 6.2E-13 1.4E-17 110.6 2.2 82 104-185 55-136 (162)
7 KOG0869 CCAAT-binding factor, 99.0 7E-10 1.5E-14 92.9 6.1 91 102-195 26-117 (168)
8 cd00074 H2A Histone 2A; H2A is 98.9 5.9E-09 1.3E-13 83.0 7.9 79 103-181 15-93 (115)
9 KOG0870 DNA polymerase epsilon 98.9 6.4E-09 1.4E-13 87.6 7.6 93 104-199 6-100 (172)
10 COG5262 HTA1 Histone H2A [Chro 98.8 6.8E-09 1.5E-13 83.6 5.1 80 103-182 21-100 (132)
11 smart00414 H2A Histone 2A. 98.6 1.4E-07 3E-12 74.2 5.9 78 105-182 6-84 (106)
12 PTZ00017 histone H2A; Provisio 98.5 2.5E-07 5.5E-12 75.6 5.3 79 103-181 22-100 (134)
13 PLN00154 histone H2A; Provisio 98.5 3E-07 6.5E-12 75.4 5.6 79 104-182 34-113 (136)
14 COG2036 HHT1 Histones H3 and H 98.4 4.4E-07 9.6E-12 69.8 6.1 72 102-174 13-84 (91)
15 KOG1756 Histone 2A [Chromatin 98.4 6.7E-07 1.5E-11 72.8 5.5 81 103-183 22-102 (131)
16 PF00125 Histone: Core histone 98.3 1.4E-06 3.1E-11 62.2 6.2 69 104-172 4-73 (75)
17 smart00803 TAF TATA box bindin 98.3 4.7E-06 1E-10 60.1 7.8 63 108-171 2-64 (65)
18 PLN00153 histone H2A; Provisio 98.2 1.7E-06 3.6E-11 70.5 5.2 80 103-182 19-99 (129)
19 PLN00156 histone H2AX; Provisi 98.2 1.9E-06 4.2E-11 70.9 5.5 79 104-182 25-104 (139)
20 PLN00157 histone H2A; Provisio 98.2 1.9E-06 4E-11 70.5 5.0 80 103-182 21-101 (132)
21 cd00076 H4 Histone H4, one of 98.1 1.4E-05 3E-10 60.8 8.1 65 108-173 13-77 (85)
22 PTZ00252 histone H2A; Provisio 98.1 7.1E-06 1.5E-10 67.2 6.2 80 103-182 20-102 (134)
23 PLN00035 histone H4; Provision 98.0 2.6E-05 5.7E-10 61.3 8.1 71 108-179 29-101 (103)
24 PTZ00015 histone H4; Provision 98.0 5E-05 1.1E-09 59.7 8.2 66 107-173 29-94 (102)
25 KOG0871 Class 2 transcription 97.9 4.2E-05 9.1E-10 63.9 7.7 77 105-185 9-86 (156)
26 KOG1658 DNA polymerase epsilon 97.8 2E-05 4.4E-10 66.1 4.0 76 104-184 7-82 (162)
27 smart00417 H4 Histone H4. 97.8 8.5E-05 1.8E-09 55.3 6.9 60 108-168 13-72 (74)
28 cd07981 TAF12 TATA Binding Pro 97.7 0.00034 7.3E-09 51.0 8.0 67 110-177 3-70 (72)
29 smart00428 H3 Histone H3. 97.4 0.00098 2.1E-08 52.6 7.8 75 97-171 21-98 (105)
30 COG5150 Class 2 transcription 97.3 0.00064 1.4E-08 55.9 5.8 70 106-175 9-79 (148)
31 cd08048 TAF11 TATA Binding Pro 97.2 0.0015 3.3E-08 49.5 7.3 67 105-172 13-82 (85)
32 PF02969 TAF: TATA box binding 96.7 0.011 2.5E-07 43.0 7.7 63 108-171 3-65 (66)
33 smart00576 BTP Bromodomain tra 96.6 0.011 2.3E-07 43.3 7.2 59 114-173 12-70 (77)
34 PLN00121 histone H3; Provision 96.6 0.0083 1.8E-07 49.4 6.8 75 97-171 54-129 (136)
35 PTZ00018 histone H3; Provision 96.4 0.011 2.3E-07 48.8 6.6 73 97-170 54-128 (136)
36 PLN00161 histone H3; Provision 96.4 0.014 3.1E-07 48.0 7.2 76 97-172 47-124 (135)
37 PLN00160 histone H3; Provision 96.2 0.017 3.7E-07 45.2 6.4 74 98-171 14-89 (97)
38 cd07979 TAF9 TATA Binding Prot 96.2 0.023 5E-07 45.1 7.0 69 112-181 5-73 (117)
39 cd08050 TAF6 TATA Binding Prot 96.1 0.024 5.1E-07 52.1 7.6 63 110-173 1-63 (343)
40 PF09415 CENP-X: CENP-S associ 95.9 0.023 5.1E-07 41.9 5.6 63 110-172 1-66 (72)
41 PF15511 CENP-T: Centromere ki 95.9 0.014 3.1E-07 55.0 5.3 64 103-166 346-414 (414)
42 PF02269 TFIID-18kDa: Transcri 95.5 0.02 4.4E-07 43.7 4.0 72 114-185 7-79 (93)
43 PF04719 TAFII28: hTAFII28-lik 95.4 0.048 1E-06 42.0 5.9 68 105-172 20-88 (90)
44 KOG1757 Histone 2A [Chromatin 95.4 0.015 3.3E-07 47.1 3.1 77 105-181 27-104 (131)
45 cd07978 TAF13 The TATA Binding 94.5 0.23 4.9E-06 38.1 7.3 63 112-175 6-68 (92)
46 PF03847 TFIID_20kDa: Transcri 94.4 0.23 5E-06 36.2 6.8 61 113-174 4-65 (68)
47 PF07524 Bromo_TP: Bromodomain 93.5 0.49 1.1E-05 34.2 7.2 59 114-173 12-70 (77)
48 PF15630 CENP-S: Kinetochore c 93.5 0.33 7.2E-06 36.2 6.4 63 114-176 11-75 (76)
49 smart00427 H2B Histone H2B. 92.8 0.62 1.3E-05 36.0 7.1 59 113-172 6-65 (89)
50 KOG3219 Transcription initiati 91.8 0.23 5E-06 43.3 4.1 69 104-173 108-177 (195)
51 PF15510 CENP-W: Centromere ki 91.4 0.44 9.5E-06 37.5 4.9 66 107-172 15-94 (102)
52 PF05236 TAF4: Transcription i 91.2 0.35 7.5E-06 42.7 4.7 45 111-156 50-94 (264)
53 PLN00158 histone H2B; Provisio 91.2 1.1 2.4E-05 36.3 7.1 60 112-172 31-91 (116)
54 KOG1745 Histones H3 and H4 [Ch 90.4 0.37 8E-06 39.9 3.9 74 99-172 57-131 (137)
55 PTZ00463 histone H2B; Provisio 90.4 1.4 3.1E-05 35.6 7.1 59 113-172 33-92 (117)
56 PF03540 TFIID_30kDa: Transcri 89.2 2.3 5E-05 29.8 6.5 48 108-156 2-49 (51)
57 KOG3423 Transcription initiati 89.1 2.2 4.9E-05 36.7 7.7 70 103-173 81-164 (176)
58 KOG1744 Histone H2B [Chromatin 88.6 1.8 3.9E-05 35.5 6.6 64 105-172 37-101 (127)
59 PLN00155 histone H2A; Provisio 87.0 0.64 1.4E-05 33.4 2.7 39 103-141 19-57 (58)
60 KOG1142 Transcription initiati 85.7 2.1 4.6E-05 38.8 5.9 77 108-184 154-230 (258)
61 cd08045 TAF4 TATA Binding Prot 82.9 5.9 0.00013 34.0 7.3 66 105-171 41-116 (212)
62 KOG3467 Histone H4 [Chromatin 80.8 6.8 0.00015 30.7 6.2 61 113-174 34-94 (103)
63 KOG2549 Transcription initiati 72.6 14 0.0003 37.1 7.3 69 111-180 14-85 (576)
64 PF02291 TFIID-31kDa: Transcri 69.5 25 0.00054 28.7 7.0 67 112-179 16-82 (129)
65 PF10979 DUF2786: Protein of u 69.2 11 0.00024 25.2 4.2 35 111-145 4-38 (43)
66 PF12767 SAGA-Tad1: Transcript 60.3 20 0.00043 31.4 5.2 40 113-153 211-250 (252)
67 COG5095 TAF6 Transcription ini 53.6 28 0.00061 33.3 5.3 61 112-173 9-69 (450)
68 KOG2389 Predicted bromodomain 51.1 49 0.0011 31.4 6.5 69 104-173 25-93 (353)
69 COG5248 TAF19 Transcription in 43.5 1.1E+02 0.0024 25.0 6.6 65 109-175 10-74 (126)
70 TIGR03015 pepcterm_ATPase puta 42.6 43 0.00093 28.2 4.4 49 126-174 215-266 (269)
71 KOG4336 TBP-associated transcr 35.2 1.5E+02 0.0032 28.0 6.8 63 111-173 7-69 (323)
72 PF13335 Mg_chelatase_2: Magne 33.4 1.4E+02 0.0031 22.6 5.5 62 104-172 27-94 (96)
73 COG5162 Transcription initiati 32.3 1.9E+02 0.004 25.3 6.6 30 126-155 105-134 (197)
74 KOG0785 Isocitrate dehydrogena 31.5 58 0.0012 31.0 3.6 49 132-181 169-217 (365)
75 PRK00411 cdc6 cell division co 29.9 2.7E+02 0.0058 25.0 7.6 64 111-174 209-282 (394)
76 KOG3901 Transcription initiati 24.9 3.6E+02 0.0079 21.7 6.6 59 114-175 15-73 (109)
77 TIGR02928 orc1/cdc6 family rep 24.6 3.9E+02 0.0085 23.6 7.6 50 125-174 219-274 (365)
78 PF13654 AAA_32: AAA domain; P 21.8 3.1E+02 0.0067 27.0 6.8 62 112-174 434-506 (509)
79 TIGR00764 lon_rel lon-related 20.5 4.1E+02 0.0088 26.6 7.5 63 111-173 315-390 (608)
No 1
>KOG1657 consensus CCAAT-binding factor, subunit C (HAP5) [Transcription]
Probab=99.85 E-value=4.5e-22 Score=173.98 Aligned_cols=95 Identities=31% Similarity=0.460 Sum_probs=91.1
Q ss_pred CcccccCCCCCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcCCccc
Q 028727 99 DDDEVSKVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQSKYD 178 (205)
Q Consensus 99 ~~~~d~~~~~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~e~fd 178 (205)
.+..+.....|||+|||+|||.|++|.+|+.||++++++|||+||..|+..+|.++..++|+++++.||+.+|.+++.|+
T Consensus 65 e~~~d~~~~~lPlaRiKkimK~dedv~mI~~Eapvl~aka~E~Fi~elt~~sw~~Tee~~rrtl~~sdia~av~~s~~fd 144 (236)
T KOG1657|consen 65 EGQLDFKNHILPLARIKKIMKSDEDVSMITAEAPVLFAKACELFITELTLRSWVHTEENKRRTLQKSDIAAAVTQSETFD 144 (236)
T ss_pred ccccchhhccCcHhhccccccccccccccchhHHHHHHHHHHHHHHHHHHHhhhhhcccccccchHHHHHHHhccCCCcc
Confidence 56788999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccCCCcccHHHH
Q 028727 179 FLSDYVPEKIKAEDA 193 (205)
Q Consensus 179 FL~DiVP~ki~l~d~ 193 (205)
||.|+||++..++.+
T Consensus 145 FL~DivP~~~~~~~~ 159 (236)
T KOG1657|consen 145 FLRDIVPRKILAEKY 159 (236)
T ss_pred ceeccccchhccccc
Confidence 999999999877644
No 2
>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=99.81 E-value=8.3e-20 Score=129.00 Aligned_cols=64 Identities=30% Similarity=0.618 Sum_probs=59.8
Q ss_pred CCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHh
Q 028727 108 NFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVV 171 (205)
Q Consensus 108 ~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV 171 (205)
.||++||+||||.+|++..||+||+++|++|+|+||++|+..|+.+|+.++|+||+|+||..||
T Consensus 2 ~lP~a~vkri~k~~~~~~~vs~ea~~~i~~a~e~Fi~~l~~~A~~~a~~~~rkti~~~Dv~~Av 65 (65)
T PF00808_consen 2 SLPLARVKRIMKSDPDVMRVSKEAVEAIAKAAEEFIQYLAKEANEIAQRDKRKTITYEDVAKAV 65 (65)
T ss_dssp SS-HHHHHHHHHHTSTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEE-HHHHHHHH
T ss_pred CCChHHHHHHhccCCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHC
Confidence 6999999999999999999999999999999999999999999999999999999999999986
No 3
>COG5208 HAP5 CCAAT-binding factor, subunit C [Transcription]
Probab=99.80 E-value=2e-20 Score=163.34 Aligned_cols=86 Identities=31% Similarity=0.501 Sum_probs=82.9
Q ss_pred cccCCCCCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcCCcccccc
Q 028727 102 EVSKVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQSKYDFLS 181 (205)
Q Consensus 102 ~d~~~~~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~e~fdFL~ 181 (205)
-......||++|||++||.|.||.+||.||+++++++||.||..|+-.||.+|..++|+||+..||+.||..++-|+||.
T Consensus 103 ~~~k~h~LPlARIkkvMKtdedVkMisaEaPvlFak~~EiFI~ELTmRAW~~ae~NkRRtLQksDia~Av~kSeMfDFLi 182 (286)
T COG5208 103 ILLKDHNLPLARIKKVMKTDEDVKMISAEAPVLFAKITEIFIEELTMRAWINAEENKRRTLQKSDIAAAVKKSEMFDFLI 182 (286)
T ss_pred HHHHhccCcHHHHHHHHhcccchhheecccchHHHHHHHHHHHHHHHHHHHHHhHhhhhHHHHHHHHHHHHHHHHHhHHh
Confidence 35677889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCc
Q 028727 182 DYVPEK 187 (205)
Q Consensus 182 DiVP~k 187 (205)
||||+.
T Consensus 183 divpr~ 188 (286)
T COG5208 183 DIVPRN 188 (286)
T ss_pred hhccCC
Confidence 999976
No 4
>KOG1659 consensus Class 2 transcription repressor NC2, alpha subunit (DRAP1) [Transcription]
Probab=99.78 E-value=1.6e-19 Score=156.09 Aligned_cols=87 Identities=23% Similarity=0.384 Sum_probs=82.3
Q ss_pred cccccCCCCCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcCCcccc
Q 028727 100 DDEVSKVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQSKYDF 179 (205)
Q Consensus 100 ~~~d~~~~~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~e~fdF 179 (205)
...+...++||++|||+||++|.|||.|++.++++|++|+|||++.|+..++.+++..+.+||+..||.+||.+.+.|+|
T Consensus 5 ~~~~~~~trfp~aRiKKIMQ~dEdIGKvaqavPViisralElFl~~l~~~t~~~t~~~~aKt~s~~hlkq~v~~~~~FdF 84 (224)
T KOG1659|consen 5 SSFKKYKTRFPPARIKKIMQSDEDIGKVAQAVPVIISRALELFLESLLQKTLEITRSRGAKTVSSSHLKQAVESDPKFDF 84 (224)
T ss_pred chhhhhhccCCHHHHHHHHhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhcCccccCHHHHHHHHhccchhHH
Confidence 44567789999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccCCC
Q 028727 180 LSDYVPE 186 (205)
Q Consensus 180 L~DiVP~ 186 (205)
|+++|-.
T Consensus 85 Lk~~v~~ 91 (224)
T KOG1659|consen 85 LKEVVEK 91 (224)
T ss_pred HHHHHHh
Confidence 9997643
No 5
>COG5247 BUR6 Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription]
Probab=99.72 E-value=2.8e-18 Score=134.32 Aligned_cols=83 Identities=20% Similarity=0.339 Sum_probs=79.9
Q ss_pred ccCCCCCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcCCccccccc
Q 028727 103 VSKVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQSKYDFLSD 182 (205)
Q Consensus 103 d~~~~~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~e~fdFL~D 182 (205)
.-..++||++|||+||++|.||+.|++.+++++++|+||||..|+..+...|+..+.+.|+..+|..++.+++.|+||.+
T Consensus 18 ~~~ktrFP~ar~KkIMQ~deDiGKV~q~tPVIaskalE~Fl~~iv~~s~k~aR~~~skR~t~e~lk~a~~sdekFdFL~~ 97 (113)
T COG5247 18 KKKKTRFPIARLKKIMQLDEDIGKVGQSTPVIASKALEMFLTEIVGLSLKEARKKSSKRMTSEFLKRATESDEKFDFLKN 97 (113)
T ss_pred hhhhhcCCHHHHHHHHHhhhhhhhhhhcchHHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHhhhHHHHHHHH
Confidence 36778999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCC
Q 028727 183 YVP 185 (205)
Q Consensus 183 iVP 185 (205)
++.
T Consensus 98 ~~~ 100 (113)
T COG5247 98 MEQ 100 (113)
T ss_pred HHH
Confidence 864
No 6
>KOG1658 consensus DNA polymerase epsilon, subunit C [Replication, recombination and repair]
Probab=99.31 E-value=6.2e-13 Score=110.63 Aligned_cols=82 Identities=20% Similarity=0.387 Sum_probs=78.9
Q ss_pred cCCCCCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcCCcccccccc
Q 028727 104 SKVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQSKYDFLSDY 183 (205)
Q Consensus 104 ~~~~~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~e~fdFL~Di 183 (205)
...++||++||+.+|+.|||+.+...++.++|++|+|+||+.|...+|.+++..+|+|++..|+..+|...+.|.||.+.
T Consensus 55 a~l~rLpL~rik~vvkl~pdl~l~~dea~~l~a~aaelfi~~Ln~~~~~~~q~~k~kt~qr~d~D~ai~~~de~~fle~~ 134 (162)
T KOG1658|consen 55 ASLSRLPLARIKQVVKLDPDLTLLNDEASQLIAKAAELFIQELNDVAYTTAQLRKRKTEQRRDYDTAIEAVDEFAFLEGA 134 (162)
T ss_pred hhhhhccHHHHHhhccCCcchhhhhhHHHHHHHHHHHHHHHHHHhccchhHHHHHhhhhhhhcccccccchHHHHHHhhh
Confidence 45689999999999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred CC
Q 028727 184 VP 185 (205)
Q Consensus 184 VP 185 (205)
.+
T Consensus 135 ~d 136 (162)
T KOG1658|consen 135 LD 136 (162)
T ss_pred cc
Confidence 64
No 7
>KOG0869 consensus CCAAT-binding factor, subunit A (HAP3) [Transcription]
Probab=98.99 E-value=7e-10 Score=92.87 Aligned_cols=91 Identities=20% Similarity=0.275 Sum_probs=82.2
Q ss_pred cccCCCCCChHHHHHHHhcC-CCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcCCccccc
Q 028727 102 EVSKVCNFPMGRIKRIFKTQ-SSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQSKYDFL 180 (205)
Q Consensus 102 ~d~~~~~LPlARVKRIMKsD-pDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~e~fdFL 180 (205)
-......|||+-|-||||.- |...+||+||--.|..++..||..++.+|.+.|++.+||||+-+||..|+. .|.|-
T Consensus 26 ~reqDr~LPIANV~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~---tLGFe 102 (168)
T KOG0869|consen 26 LREQDRFLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMS---TLGFE 102 (168)
T ss_pred cchhhhhccHHHHHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHH---HcCcH
Confidence 45566789999999999975 889999999999999999999999999999999999999999999999999 67888
Q ss_pred cccCCCcccHHHHHH
Q 028727 181 SDYVPEKIKAEDALA 195 (205)
Q Consensus 181 ~DiVP~ki~l~d~l~ 195 (205)
..+-|.++.|-.|.+
T Consensus 103 ~Y~eplkiyL~kYRe 117 (168)
T KOG0869|consen 103 NYAEPLKIYLQKYRE 117 (168)
T ss_pred hHHHHHHHHHHHHHH
Confidence 888898887766665
No 8
>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=98.90 E-value=5.9e-09 Score=82.96 Aligned_cols=79 Identities=20% Similarity=0.269 Sum_probs=73.3
Q ss_pred ccCCCCCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcCCcccccc
Q 028727 103 VSKVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQSKYDFLS 181 (205)
Q Consensus 103 d~~~~~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~e~fdFL~ 181 (205)
.-..+.||++||.|+|+..--...|+..|++.++.++|.|+..+...|.+.|...++++|+..||..+|.+++.|++|-
T Consensus 15 ~ragL~fPV~ri~R~Lk~~~~a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lAi~nD~EL~~L~ 93 (115)
T cd00074 15 ARAGLQFPVGRIHRYLKKGRYAERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLAVRNDEELNKLL 93 (115)
T ss_pred cccCccCcHHHHHHHHHcCccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHHHhccHHHHHHH
Confidence 3457999999999999986666899999999999999999999999999999999999999999999999999999654
No 9
>KOG0870 consensus DNA polymerase epsilon, subunit D [Transcription]
Probab=98.87 E-value=6.4e-09 Score=87.61 Aligned_cols=93 Identities=18% Similarity=0.242 Sum_probs=78.6
Q ss_pred cCCCCCChHHHHHHHhcC-CCC-CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcCCcccccc
Q 028727 104 SKVCNFPMGRIKRIFKTQ-SSD-IGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQSKYDFLS 181 (205)
Q Consensus 104 ~~~~~LPlARVKRIMKsD-pDV-~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~e~fdFL~ 181 (205)
...+.||.+-|.||+|.- |+. ..|++||..+|++|+-+||.+|+..|...|..++|+||+.+||..++...+.-.|+.
T Consensus 6 i~dl~lP~AiI~rlvke~l~E~~vsisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~sadDVl~aL~Eiefs~f~~ 85 (172)
T KOG0870|consen 6 IEDLNLPNAIITRLVKEVLPESNVSISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALDEIEFSSFVN 85 (172)
T ss_pred HHHhhccHHHHHHHHHHhCccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHHHhchHHHhh
Confidence 346789999999999965 555 799999999999999999999999999999999999999999999999665445544
Q ss_pred ccCCCcccHHHHHHHHHH
Q 028727 182 DYVPEKIKAEDALAQREL 199 (205)
Q Consensus 182 DiVP~ki~l~d~l~~Rk~ 199 (205)
|.+-.|+.|...-+.
T Consensus 86 ---plk~~Le~yk~~~k~ 100 (172)
T KOG0870|consen 86 ---PLKSALEAYKKAVKQ 100 (172)
T ss_pred ---HHHHHHHHHHHHHHH
Confidence 877777777665444
No 10
>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]
Probab=98.80 E-value=6.8e-09 Score=83.64 Aligned_cols=80 Identities=20% Similarity=0.301 Sum_probs=75.7
Q ss_pred ccCCCCCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcCCccccccc
Q 028727 103 VSKVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQSKYDFLSD 182 (205)
Q Consensus 103 d~~~~~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~e~fdFL~D 182 (205)
....+.||++||+||||-+.--+.|+..|++.++-++|..+..++.-|-+.|..++.+.|.+.||-.||.++++|+||..
T Consensus 21 a~agl~fpvgrvkr~lk~~~~~~Rig~~A~Vyl~AvleYL~aEilelAgNaA~d~kkkri~PrHlqlAIrnD~EL~~l~~ 100 (132)
T COG5262 21 AKAGLIFPVGRVKRLLKKGNYRMRIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIPRHLQLAIRNDEELNKLLG 100 (132)
T ss_pred hhcCccccHHHHHHHHHcCccceeecCCcHHHHHHHHHHHHHHHHHHhhhhhhhcCcceechHHHHHHhcCcHHHHHHhh
Confidence 34568999999999999888889999999999999999999999999999999999999999999999999999999976
No 11
>smart00414 H2A Histone 2A.
Probab=98.56 E-value=1.4e-07 Score=74.16 Aligned_cols=78 Identities=17% Similarity=0.324 Sum_probs=72.0
Q ss_pred CCCCCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcCCccc-cccc
Q 028727 105 KVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQSKYD-FLSD 182 (205)
Q Consensus 105 ~~~~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~e~fd-FL~D 182 (205)
..+.||++||.|+||..--...|+..|++.++-.+|.++..+..-|...|...+++.|++.||..+|.++++|. +|.+
T Consensus 6 agL~fPVgRi~r~Lk~~~~~~Rv~~~A~VyLaAvLEYLtaEILeLagn~a~~~k~~rItp~hi~lAi~nD~EL~~L~~~ 84 (106)
T smart00414 6 AGLQFPVGRIHRLLRKGTYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLAIRNDEELNKLLKG 84 (106)
T ss_pred CCccCchHHHHHHHHcCccccccccccHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccchHHHhhhccCCHHHHHHHcC
Confidence 46799999999999987777899999999999999999999999999999999999999999999999999998 4444
No 12
>PTZ00017 histone H2A; Provisional
Probab=98.46 E-value=2.5e-07 Score=75.64 Aligned_cols=79 Identities=16% Similarity=0.264 Sum_probs=72.8
Q ss_pred ccCCCCCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcCCcccccc
Q 028727 103 VSKVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQSKYDFLS 181 (205)
Q Consensus 103 d~~~~~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~e~fdFL~ 181 (205)
.-..+.||++||.|+|+..--...|+..|++.++-.+|.++..+..-|.+.|...+++.|++.||..+|.++++|+.|-
T Consensus 22 ~ragL~FPVgRi~R~Lk~g~~a~RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk~RItPrHi~lAI~nDeEL~~Ll 100 (134)
T PTZ00017 22 AKAGLQFPVGRVHRYLKKGRYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKRITPRHIQLAIRNDEELNKLL 100 (134)
T ss_pred ccCCcccchHHHHHHHhccchhccccccchhhhHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHhhccCcHHHHHHH
Confidence 3457999999999999987666799999999999999999999999999999999999999999999999999999665
No 13
>PLN00154 histone H2A; Provisional
Probab=98.45 E-value=3e-07 Score=75.38 Aligned_cols=79 Identities=19% Similarity=0.241 Sum_probs=72.4
Q ss_pred cCCCCCChHHHHHHHhcCC-CCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcCCccccccc
Q 028727 104 SKVCNFPMGRIKRIFKTQS-SDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQSKYDFLSD 182 (205)
Q Consensus 104 ~~~~~LPlARVKRIMKsDp-DV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~e~fdFL~D 182 (205)
-..+.||++||.|+||..- --..|+..|++.++-.+|.+...+.+-|.+.|...+++.|++.||.-+|.++++|++|-.
T Consensus 34 rAgL~FPVgRi~r~Lk~g~~~~~RVga~ApVYLAAVLEYLtAEVLELAGNaA~d~kk~RItPrHi~lAIrnDeEL~~Ll~ 113 (136)
T PLN00154 34 RAGLQFPVGRIHRQLKQRVSAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIK 113 (136)
T ss_pred ccCccCchHHHHHHHHhhhhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhCCceecHHHhhhhccCcHHHHHHhc
Confidence 3478999999999999875 446999999999999999999999999999999999999999999999999999996654
No 14
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Probab=98.45 E-value=4.4e-07 Score=69.82 Aligned_cols=72 Identities=18% Similarity=0.341 Sum_probs=65.0
Q ss_pred cccCCCCCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcC
Q 028727 102 EVSKVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQ 174 (205)
Q Consensus 102 ~d~~~~~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~ 174 (205)
.......||.+-|.||||.-.. ..||.+|...+..|.|.|+..|+..|..+|...+|+||+..||.-++...
T Consensus 13 ~~~~~~~Lp~apv~Ri~r~~~~-~Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI~la~~~~ 84 (91)
T COG2036 13 QRSTDLLLPKAPVRRILRKAGA-ERVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDIKLALKRL 84 (91)
T ss_pred hhhhhhhcCchHHHHHHHHHhH-HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHHHh
Confidence 3456778999999999998633 39999999999999999999999999999999999999999999998743
No 15
>KOG1756 consensus Histone 2A [Chromatin structure and dynamics]
Probab=98.36 E-value=6.7e-07 Score=72.75 Aligned_cols=81 Identities=16% Similarity=0.255 Sum_probs=75.1
Q ss_pred ccCCCCCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcCCccccccc
Q 028727 103 VSKVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQSKYDFLSD 182 (205)
Q Consensus 103 d~~~~~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~e~fdFL~D 182 (205)
.-..+.||++||.|+|+...-...|+..|+++++-..|.....++.-|-..|..+++..|.+.||-.||.++++|.||-+
T Consensus 22 ~~agl~fPvgri~r~Lr~~~~~~ri~~gapV~laavLeYL~Aeile~agnaardnkk~ri~PrH~~lAI~NDeEL~~lL~ 101 (131)
T KOG1756|consen 22 SRAGLQFPVGRIHRLLRKGRYAQRVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRITPRHLQLAIRNDEELNKLLG 101 (131)
T ss_pred hhcccccCHHHHHHHHHccchhhhccCCChHHHHHHHHHHHHHHHHHhHHHhhhcCccccChHHHHHHHhCcHHHHHHhc
Confidence 44578999999999999977788999999999999999999999999999999999999999999999999999999976
Q ss_pred c
Q 028727 183 Y 183 (205)
Q Consensus 183 i 183 (205)
-
T Consensus 102 ~ 102 (131)
T KOG1756|consen 102 K 102 (131)
T ss_pred c
Confidence 3
No 16
>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=98.34 E-value=1.4e-06 Score=62.24 Aligned_cols=69 Identities=17% Similarity=0.298 Sum_probs=62.5
Q ss_pred cCCCCCChHHHHHHHhcCCCC-CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhh
Q 028727 104 SKVCNFPMGRIKRIFKTQSSD-IGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVS 172 (205)
Q Consensus 104 ~~~~~LPlARVKRIMKsDpDV-~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~ 172 (205)
...+.+|+.||.+.+..+-.. ..||.+|+.++..++|.|+..|...|+.+|...+|+||+..||..|+.
T Consensus 4 ~~~~~~~~~r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~tI~~~DI~~A~r 73 (75)
T PF00125_consen 4 RLIPKFPFSRLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRKTITPRDIQLAVR 73 (75)
T ss_dssp HSSSHHHHHHHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBSEEGHHHHHHHHH
T ss_pred cccCceEEeeeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCcEecHHHHHHHHh
Confidence 345678999999999888555 599999999999999999999999999999999999999999999886
No 17
>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=98.28 E-value=4.7e-06 Score=60.07 Aligned_cols=63 Identities=13% Similarity=0.240 Sum_probs=60.0
Q ss_pred CCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHh
Q 028727 108 NFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVV 171 (205)
Q Consensus 108 ~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV 171 (205)
.||.+-|++|.+.- .+..||.++...++..+|.|+..+++.|..++...+|+||+.+||..|+
T Consensus 2 ~~p~~~i~ria~~~-Gi~ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~Al 64 (65)
T smart00803 2 WLPKETIKDVAESL-GIGNLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSAL 64 (65)
T ss_pred CCCHHHHHHHHHHC-CCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHHh
Confidence 58999999999987 6789999999999999999999999999999999999999999998876
No 18
>PLN00153 histone H2A; Provisional
Probab=98.24 E-value=1.7e-06 Score=70.46 Aligned_cols=80 Identities=18% Similarity=0.284 Sum_probs=72.6
Q ss_pred ccCCCCCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcCCccc-ccc
Q 028727 103 VSKVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQSKYD-FLS 181 (205)
Q Consensus 103 d~~~~~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~e~fd-FL~ 181 (205)
.-..+.||++||.|.|+.----..|+..|++.++-..|.++..+..-|.+.|..++++.|.+.||..+|.++++|+ +|.
T Consensus 19 ~ragL~FpVgRi~R~Lr~g~~a~Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~nDeEL~~Ll~ 98 (129)
T PLN00153 19 AKAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIVPRHIQLAIRNDEELGKLLG 98 (129)
T ss_pred cccCcccchHHHHHHHhcCchhhccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccChHHHHhhccCcHHHHHHHC
Confidence 3457999999999999986556799999999999999999999999999999999999999999999999999998 554
Q ss_pred c
Q 028727 182 D 182 (205)
Q Consensus 182 D 182 (205)
+
T Consensus 99 ~ 99 (129)
T PLN00153 99 E 99 (129)
T ss_pred C
Confidence 4
No 19
>PLN00156 histone H2AX; Provisional
Probab=98.23 E-value=1.9e-06 Score=70.88 Aligned_cols=79 Identities=18% Similarity=0.292 Sum_probs=71.8
Q ss_pred cCCCCCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcCCccc-cccc
Q 028727 104 SKVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQSKYD-FLSD 182 (205)
Q Consensus 104 ~~~~~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~e~fd-FL~D 182 (205)
-..+.||++||.|.|+.----..|+..|++.++-..|..+..+..-|.+.|...+++.|.+.||-.+|.++++|. +|.+
T Consensus 25 rAgL~FPVgRi~R~Lk~g~ya~RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~RItPrHi~lAIrnDeEL~~Ll~~ 104 (139)
T PLN00156 25 KAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRNDEELSKLLGS 104 (139)
T ss_pred ccCcccchHHHHHHHhcCChhhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHhhccCcHHHHHHHCC
Confidence 347899999999999986555699999999999999999999999999999999999999999999999999998 4444
No 20
>PLN00157 histone H2A; Provisional
Probab=98.22 E-value=1.9e-06 Score=70.46 Aligned_cols=80 Identities=18% Similarity=0.281 Sum_probs=72.6
Q ss_pred ccCCCCCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcCCccc-ccc
Q 028727 103 VSKVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQSKYD-FLS 181 (205)
Q Consensus 103 d~~~~~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~e~fd-FL~ 181 (205)
.-..+.||++||.|.|+.----..|+..|++.++-..|.++..+..-|.+.|...+++.|...||..+|.++++|. +|.
T Consensus 21 ~ragL~FPVgRi~R~Lk~g~~a~RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~nDeEL~~Ll~ 100 (132)
T PLN00157 21 AKAGLQFPVGRIARYLKAGKYATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSRIVPRHIQLAVRNDEELSKLLG 100 (132)
T ss_pred cccCcccchHHHHHHHhcCchhhhcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHhhcccCcHHHHHHHc
Confidence 3457999999999999986555799999999999999999999999999999999999999999999999999998 555
Q ss_pred c
Q 028727 182 D 182 (205)
Q Consensus 182 D 182 (205)
+
T Consensus 101 ~ 101 (132)
T PLN00157 101 G 101 (132)
T ss_pred C
Confidence 5
No 21
>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=98.14 E-value=1.4e-05 Score=60.78 Aligned_cols=65 Identities=15% Similarity=0.218 Sum_probs=62.0
Q ss_pred CCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhc
Q 028727 108 NFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSE 173 (205)
Q Consensus 108 ~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~ 173 (205)
.||.+-|+||.+.. .+..||.++.-.+..+++.|++.++.+|..+|...+|+||+..||.-++..
T Consensus 13 gi~k~~I~RLarr~-GvkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr 77 (85)
T cd00076 13 GITKPAIRRLARRG-GVKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKR 77 (85)
T ss_pred cCCHHHHHHHHHHc-CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHH
Confidence 49999999999988 589999999999999999999999999999999999999999999999875
No 22
>PTZ00252 histone H2A; Provisional
Probab=98.10 E-value=7.1e-06 Score=67.25 Aligned_cols=80 Identities=14% Similarity=0.253 Sum_probs=71.1
Q ss_pred ccCCCCCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHh--cCCCcccchHHHHHhhcCCccc-c
Q 028727 103 VSKVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAK--DRKKSLAYKHLAAVVSEQSKYD-F 179 (205)
Q Consensus 103 d~~~~~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~--~kRKTI~y~DLa~aV~~~e~fd-F 179 (205)
.-..+.||++||.|.|+.----..|+..|++.++-..|.+...+.+-|.+.|.. ++++.|.+.||..+|.++++|. +
T Consensus 20 ~rAGL~FPVgRi~R~Lr~g~ya~RIga~ApVYLAAVLEYLtaEVLELAgnaa~d~~~kk~RItPrHi~lAIrNDeEL~~L 99 (134)
T PTZ00252 20 AKAGLIFPVGRVGSLLRRGQYARRIGASGAVYMAAVLEYLTAELLELSVKAAAQQAKKPKRLTPRTVTLAVRHDDDLGSL 99 (134)
T ss_pred cccCccCchHHHHHHHHcCCcccccCCccHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccccHHHHHhhccChHHHHHH
Confidence 345789999999999997765679999999999999999999999999998865 6789999999999999999998 6
Q ss_pred ccc
Q 028727 180 LSD 182 (205)
Q Consensus 180 L~D 182 (205)
|.+
T Consensus 100 l~~ 102 (134)
T PTZ00252 100 LKN 102 (134)
T ss_pred HcC
Confidence 666
No 23
>PLN00035 histone H4; Provisional
Probab=98.04 E-value=2.6e-05 Score=61.34 Aligned_cols=71 Identities=18% Similarity=0.245 Sum_probs=64.7
Q ss_pred CCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhc--CCcccc
Q 028727 108 NFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSE--QSKYDF 179 (205)
Q Consensus 108 ~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~--~e~fdF 179 (205)
.||.+-|+||.+.- .+..||.++...+..++|.|++.++.+|..+|...+|+||+..||.-++.. .+-|.|
T Consensus 29 ~ipk~~IrRLARr~-GvkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA~RKTV~~~DV~~Alkr~g~~lyGf 101 (103)
T PLN00035 29 GITKPAIRRLARRG-GVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGRTLYGF 101 (103)
T ss_pred cCCHHHHHHHHHHc-CcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHcCCcCCCC
Confidence 39999999999987 589999999999999999999999999999999999999999999999875 344444
No 24
>PTZ00015 histone H4; Provisional
Probab=97.95 E-value=5e-05 Score=59.67 Aligned_cols=66 Identities=18% Similarity=0.250 Sum_probs=62.5
Q ss_pred CCCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhc
Q 028727 107 CNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSE 173 (205)
Q Consensus 107 ~~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~ 173 (205)
..||.+-|+||.+.. .+..||.++...+..++|.|+..++.+|..+|...+|+||+..||.-|+..
T Consensus 29 ~gI~k~~IrRLarr~-GvkRIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt~~DV~~AlKr 94 (102)
T PTZ00015 29 RGITKGAIRRLARRG-GVKRISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVTAMDVVYALKR 94 (102)
T ss_pred cCCCHHHHHHHHHHc-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHh
Confidence 458999999999987 889999999999999999999999999999999999999999999999875
No 25
>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=97.92 E-value=4.2e-05 Score=63.86 Aligned_cols=77 Identities=22% Similarity=0.442 Sum_probs=68.0
Q ss_pred CCCCCChHHHHHHHhcC-CCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcCCcccccccc
Q 028727 105 KVCNFPMGRIKRIFKTQ-SSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQSKYDFLSDY 183 (205)
Q Consensus 105 ~~~~LPlARVKRIMKsD-pDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~e~fdFL~Di 183 (205)
-.+.||-+-|-+|++.= |--..|++||.-+|--||-.||..|+++|..+|....+|||.|.||..|+++ |.|= ++
T Consensus 9 de~sLPkAtv~KmIke~lP~d~rvakeareliincCvEFI~liSsEAneic~~e~KKTIa~EHV~KALe~---LgF~-eY 84 (156)
T KOG0871|consen 9 DELSLPKATVNKMIKEMLPKDVRVAKEARELIINCCVEFINLISSEANEICNKEAKKTIAPEHVIKALEN---LGFG-EY 84 (156)
T ss_pred ccccCcHHHHHHHHHHhCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcccCCHHHHHHHHHH---cchH-HH
Confidence 45789999999999974 6568999999999999999999999999999999999999999999999995 4554 44
Q ss_pred CC
Q 028727 184 VP 185 (205)
Q Consensus 184 VP 185 (205)
|+
T Consensus 85 ie 86 (156)
T KOG0871|consen 85 IE 86 (156)
T ss_pred HH
Confidence 44
No 26
>KOG1658 consensus DNA polymerase epsilon, subunit C [Replication, recombination and repair]
Probab=97.81 E-value=2e-05 Score=66.13 Aligned_cols=76 Identities=18% Similarity=0.256 Sum_probs=59.6
Q ss_pred cCCCCCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcCCcccccccc
Q 028727 104 SKVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQSKYDFLSDY 183 (205)
Q Consensus 104 ~~~~~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~e~fdFL~Di 183 (205)
.....||++.|++|-|.||..+..+.+|...++.|+|+|++.|+.-+. .+--.+...-|..||...|.|.||.|-
T Consensus 7 e~~p~~p~ekvkkiak~dPey~~te~~a~~etafatE~fvq~lv~~p~-----a~l~rLpL~rik~vvkl~pdl~l~~de 81 (162)
T KOG1658|consen 7 ECSPKLPMEKVKKIAKNDPEYMDTEDDAFVETAFATEQFVQVLVHLPQ-----ASLSRLPLARIKQVVKLDPDLTLLNDE 81 (162)
T ss_pred hhCccccHHHHHHhhcCCchhhhcccchHHHHHHHHHHHHhhhhhhhh-----hhhhhccHHHHHhhccCCcchhhhhhH
Confidence 356789999999999999999999999999999999999999999222 223445566666666666666666654
Q ss_pred C
Q 028727 184 V 184 (205)
Q Consensus 184 V 184 (205)
+
T Consensus 82 a 82 (162)
T KOG1658|consen 82 A 82 (162)
T ss_pred H
Confidence 3
No 27
>smart00417 H4 Histone H4.
Probab=97.81 E-value=8.5e-05 Score=55.26 Aligned_cols=60 Identities=18% Similarity=0.227 Sum_probs=57.2
Q ss_pred CCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHH
Q 028727 108 NFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLA 168 (205)
Q Consensus 108 ~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa 168 (205)
.||.+-|+||.+-. .+..||.++.-.+..+.|.|+..++.+|..+|...+|+||+..||.
T Consensus 13 gI~k~~IrRLaRr~-GvkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~ 72 (74)
T smart00417 13 GITKPAIRRLARRG-GVKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVV 72 (74)
T ss_pred CCCHHHHHHHHHHc-CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHhe
Confidence 48999999999977 8899999999999999999999999999999999999999999985
No 28
>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=97.66 E-value=0.00034 Score=50.97 Aligned_cols=67 Identities=13% Similarity=0.246 Sum_probs=57.8
Q ss_pred ChHHHHHHHhc-CCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcCCcc
Q 028727 110 PMGRIKRIFKT-QSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQSKY 177 (205)
Q Consensus 110 PlARVKRIMKs-DpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~e~f 177 (205)
+-..+..+|+. ||. ..++.+|..++...+|.|+..++..|..+|...+|+||...||.-++.....+
T Consensus 3 ~k~~l~~lv~~id~~-~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~r~~~~ 70 (72)
T cd07981 3 TKRKLQELLKEIDPR-EQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSDTLEVKDVQLHLERNWNI 70 (72)
T ss_pred cHHHHHHHHHhhCCC-CCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhcCC
Confidence 44556666664 665 88999999999999999999999999999999999999999999999876443
No 29
>smart00428 H3 Histone H3.
Probab=97.37 E-value=0.00098 Score=52.61 Aligned_cols=75 Identities=13% Similarity=0.257 Sum_probs=63.0
Q ss_pred CCCcccccCCCCCChHHH-HHHHhcCCC--CCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHh
Q 028727 97 RDDDDEVSKVCNFPMGRI-KRIFKTQSS--DIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVV 171 (205)
Q Consensus 97 ~~~~~~d~~~~~LPlARV-KRIMKsDpD--V~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV 171 (205)
.+..+.+..-..+|.+|+ +.|+..-.. --.++.+|+.++..|+|.|+-.|...|+.+|...+|.||...||.-+.
T Consensus 21 ~yQkst~lLI~k~pF~RLVREI~~~~~~~~~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~~kDi~La~ 98 (105)
T smart00428 21 KYQKSTDLLIRKAPFQRLVREIAQKFTTGVDLRFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIMPKDIQLAR 98 (105)
T ss_pred HHccCcccccccccHHHHHHHHHHHcCCCCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCcHhhHHHHH
Confidence 445677788889999995 555554321 359999999999999999999999999999999999999999997664
No 30
>COG5150 Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=97.26 E-value=0.00064 Score=55.92 Aligned_cols=70 Identities=21% Similarity=0.418 Sum_probs=63.2
Q ss_pred CCCCChHHHHHHHhcC-CCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcCC
Q 028727 106 VCNFPMGRIKRIFKTQ-SSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQS 175 (205)
Q Consensus 106 ~~~LPlARVKRIMKsD-pDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~e 175 (205)
...||-+-|.+++-.= |--..++++|.-++--||=.||..|+..|...|....++||.|.||..|+.+-+
T Consensus 9 e~sLPKATVqKMvS~iLp~dl~ftKearei~in~cieFi~~lsseAne~ce~EaKKTIa~EHviKALenLe 79 (148)
T COG5150 9 ENSLPKATVQKMVSSILPKDLVFTKEAREIFINACIEFINMLSSEANEACEEEAKKTIAYEHVIKALENLE 79 (148)
T ss_pred cccCcHHHHHHHHHHhccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHhcc
Confidence 4679999999988753 555789999999999999999999999999999999999999999999999654
No 31
>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=97.24 E-value=0.0015 Score=49.52 Aligned_cols=67 Identities=19% Similarity=0.323 Sum_probs=59.6
Q ss_pred CCCCCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCcccchHHHHHhh
Q 028727 105 KVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDR---KKSLAYKHLAAVVS 172 (205)
Q Consensus 105 ~~~~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~k---RKTI~y~DLa~aV~ 172 (205)
....||-+.|||||...-+ ..++.+.+.+|+..+.+||..|+..|..+....+ +.-|++.||-.|..
T Consensus 13 Rra~f~k~~iKr~~~~~~~-~~v~~~v~i~v~glaKvFVGeivE~A~~V~~~~~~~~~~Pl~P~HireA~r 82 (85)
T cd08048 13 RRSSFPKAAIKRLIQSVTG-QSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGEANTGPLQPRHLREAYR 82 (85)
T ss_pred HHhhccHHHHHHHHHHHcC-CCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCCcHHHHHHHH
Confidence 4456999999999998766 8999999999999999999999999999877655 48899999999875
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=96.71 E-value=0.011 Score=43.00 Aligned_cols=63 Identities=13% Similarity=0.216 Sum_probs=50.5
Q ss_pred CCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHh
Q 028727 108 NFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVV 171 (205)
Q Consensus 108 ~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV 171 (205)
.||..-||-|-.+- .+..++.++..+++.=+|..|..+.+.|..++...+|++|+.+||..|+
T Consensus 3 ~~~~esvk~iAes~-Gi~~l~de~a~~La~dveyrlreiiq~a~kfm~hskR~~Lt~~Di~~AL 65 (66)
T PF02969_consen 3 VFSQESVKDIAESL-GISNLSDEAAKALAEDVEYRLREIIQEALKFMRHSKRTKLTTDDINSAL 65 (66)
T ss_dssp ---HHHHHHHHHHT-T---B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHH
T ss_pred cCCHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHh
Confidence 57788888888776 6788999999999999999999999999999999999999999999886
No 33
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=96.64 E-value=0.011 Score=43.33 Aligned_cols=59 Identities=5% Similarity=0.106 Sum_probs=53.6
Q ss_pred HHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhc
Q 028727 114 IKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSE 173 (205)
Q Consensus 114 VKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~ 173 (205)
|-+|++.. ++..++.+|+-.++..++.|+..|++.+..+|...+|.+++..||..++..
T Consensus 12 Vaqil~~~-Gf~~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~~ 70 (77)
T smart00576 12 VAQILESA-GFDSFQESALETLTDILQSYIQELGRTAHSYAELAGRTEPNLGDVVLALEN 70 (77)
T ss_pred HHHHHHHc-CccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 55677755 677999999999999999999999999999999999999999999999875
No 34
>PLN00121 histone H3; Provisional
Probab=96.56 E-value=0.0083 Score=49.45 Aligned_cols=75 Identities=17% Similarity=0.334 Sum_probs=62.9
Q ss_pred CCCcccccCCCCCChHHHHH-HHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHh
Q 028727 97 RDDDDEVSKVCNFPMGRIKR-IFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVV 171 (205)
Q Consensus 97 ~~~~~~d~~~~~LPlARVKR-IMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV 171 (205)
.+....+..-..+|..|+=+ |+..-..--.+..+|+.++..|+|.|+-.|-..++.+|...+|-||...||.-+.
T Consensus 54 ~yQkst~lLI~k~pF~RLVREI~~~~~~~~Rf~~~Al~ALQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~ 129 (136)
T PLN00121 54 KYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAR 129 (136)
T ss_pred HhccccccccccccHHHHHHHHHHHhCccceeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcceecchhhHHHHH
Confidence 44667788889999999654 5544222359999999999999999999999999999999999999999996553
No 35
>PTZ00018 histone H3; Provisional
Probab=96.43 E-value=0.011 Score=48.79 Aligned_cols=73 Identities=18% Similarity=0.360 Sum_probs=62.4
Q ss_pred CCCcccccCCCCCChHHHHH-HHhc-CCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHH
Q 028727 97 RDDDDEVSKVCNFPMGRIKR-IFKT-QSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAV 170 (205)
Q Consensus 97 ~~~~~~d~~~~~LPlARVKR-IMKs-DpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~a 170 (205)
.+....+..-..+|..|+=+ |+.. .++ ..+..+|+.++..|+|.|+-.|-..++.+|...+|-||...||.-+
T Consensus 54 ~yQkst~lLI~k~pF~RLVREI~~~~~~~-~rf~~~al~aLQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~ 128 (136)
T PTZ00018 54 RYQKSTELLIRKLPFQRLVREIAQDFKTD-LRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLA 128 (136)
T ss_pred HHcccchhccccccHHHHHHHHHHHcCCc-ceeeHHHHHHHHHHHHHHHHHHhhhhHHHHHhhcceecchhhHHHH
Confidence 44667788889999999655 4443 344 4999999999999999999999999999999999999999999655
No 36
>PLN00161 histone H3; Provisional
Probab=96.39 E-value=0.014 Score=48.04 Aligned_cols=76 Identities=18% Similarity=0.313 Sum_probs=63.7
Q ss_pred CCCcccccCCCCCChHHHH-HHHhc-CCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhh
Q 028727 97 RDDDDEVSKVCNFPMGRIK-RIFKT-QSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVS 172 (205)
Q Consensus 97 ~~~~~~d~~~~~LPlARVK-RIMKs-DpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~ 172 (205)
.+....+..-..+|.+|+= .|+.. .+..-.+..+|+.++..|+|.|+-.|-.+|+.+|...+|-||...||.-+..
T Consensus 47 ~yQkst~lLIpklPF~RLVREI~~~~~~~~~Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHAkRVTlm~kDm~La~r 124 (135)
T PLN00161 47 KYQKSTELLIRKLPFARLVREISNEMLREPFRWTAEALLALQEATEDFLVHLFEDCNLCAIHAKRVTIMPKDMQLARR 124 (135)
T ss_pred HHccccccccccccHHHHHHHHHHhcCCCCcEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchhhHHHHHH
Confidence 4456777888999999964 45543 2444699999999999999999999999999999999999999999976643
No 37
>PLN00160 histone H3; Provisional
Probab=96.21 E-value=0.017 Score=45.16 Aligned_cols=74 Identities=16% Similarity=0.273 Sum_probs=61.3
Q ss_pred CCcccccCCCCCChHHHHH-HHhc-CCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHh
Q 028727 98 DDDDEVSKVCNFPMGRIKR-IFKT-QSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVV 171 (205)
Q Consensus 98 ~~~~~d~~~~~LPlARVKR-IMKs-DpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV 171 (205)
+..+.+..-..+|..|+=| |+.. ..+.-.+..+|+.++..|+|.|+-.|-..++.+|...+|-||...||.-+.
T Consensus 14 yQkst~lLI~k~pF~RLVREI~~~~~~~~~Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRVTl~~kD~~L~~ 89 (97)
T PLN00160 14 YQKSTDLLIRRLPFARLVREIQMEMSREAYRWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRVTIMPKDMQLAR 89 (97)
T ss_pred HccchhhhhccccHHHHHHHHHHHcCCCCcEeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcccccchhhHHHHH
Confidence 3455667778899999655 4442 245469999999999999999999999999999999999999999997653
No 38
>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=96.15 E-value=0.023 Score=45.13 Aligned_cols=69 Identities=13% Similarity=0.163 Sum_probs=61.5
Q ss_pred HHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcCCcccccc
Q 028727 112 GRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQSKYDFLS 181 (205)
Q Consensus 112 ARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~e~fdFL~ 181 (205)
.-|.+|++.- .+..++..++..+..-++.++..+..+|..+|...+|+||+.+||.-||+..-.|.|-.
T Consensus 5 ~~v~~iLk~~-Gv~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~r~~~~f~~ 73 (117)
T cd07979 5 RVIAAILKSM-GITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQSRVDYSFTS 73 (117)
T ss_pred HHHHHHHHHC-CCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhccCCCC
Confidence 3578888876 77899999999999999999999999999999999999999999999999765566654
No 39
>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=96.06 E-value=0.024 Score=52.05 Aligned_cols=63 Identities=14% Similarity=0.201 Sum_probs=56.9
Q ss_pred ChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhc
Q 028727 110 PMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSE 173 (205)
Q Consensus 110 PlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~ 173 (205)
|..-|+-|.++- ++..++.+|...++.-+|.++..+++.|...++..+|++|+.+||..|+..
T Consensus 1 ~~~~i~~ia~~~-Gi~~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di~~Al~~ 63 (343)
T cd08050 1 PQESIKLIAESL-GIDSLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHALRL 63 (343)
T ss_pred ChhHHHHHHHHc-CCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHH
Confidence 345577777766 778999999999999999999999999999999999999999999999874
No 40
>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=95.91 E-value=0.023 Score=41.90 Aligned_cols=63 Identities=19% Similarity=0.296 Sum_probs=51.7
Q ss_pred ChHHHHHHHhc--CCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCc-ccchHHHHHhh
Q 028727 110 PMGRIKRIFKT--QSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKS-LAYKHLAAVVS 172 (205)
Q Consensus 110 PlARVKRIMKs--DpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKT-I~y~DLa~aV~ 172 (205)
|-.-|.||++. ..+-..|+.+|+-++++=.++||..-+..|+..+...+... |..+||..+.-
T Consensus 1 p~~li~rll~~~f~~~~tkIs~dal~l~~eyl~iFV~EAv~Ra~~~a~~e~~~~~le~e~LEki~p 66 (72)
T PF09415_consen 1 PPELIARLLHEHFKDDKTKISKDALKLSAEYLRIFVREAVARAAEQAEAEGDEGFLEVEHLEKILP 66 (72)
T ss_dssp -CHHHHHHHCTTSSSTT-EE-CCCHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSEE-HHHHHHHCH
T ss_pred ChHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCHHHHHHHHH
Confidence 55678899996 35778999999999999999999999999999999999888 99999998654
No 41
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T.
Probab=95.85 E-value=0.014 Score=55.00 Aligned_cols=64 Identities=20% Similarity=0.295 Sum_probs=46.0
Q ss_pred ccCCCCCChHHHHHHHhcC-----CCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchH
Q 028727 103 VSKVCNFPMGRIKRIFKTQ-----SSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKH 166 (205)
Q Consensus 103 d~~~~~LPlARVKRIMKsD-----pDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~D 166 (205)
......||.+-||++...- -.-+.|+++|+-+|.+|++.|.++|+..=-.+|...+||||.-.|
T Consensus 346 gi~~P~lP~~~vK~la~~~ak~s~~sK~kiskdal~aleqasdwfFeQl~dDL~aYA~HAgRKTIdesD 414 (414)
T PF15511_consen 346 GIPYPSLPPGVVKKLAQHFAKSSGGSKMKISKDALEALEQASDWFFEQLGDDLEAYAKHAGRKTIDESD 414 (414)
T ss_dssp ------S-HHHHHHHHHHHH-------S-B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHH
T ss_pred CCCCCCCCccHHHHHHHHHHHhhcccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCCCC
Confidence 3456779999999987643 244799999999999999999999999999999999999998765
No 42
>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=95.47 E-value=0.02 Score=43.71 Aligned_cols=72 Identities=17% Similarity=0.284 Sum_probs=34.2
Q ss_pred HHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcCC-ccccccccCC
Q 028727 114 IKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQS-KYDFLSDYVP 185 (205)
Q Consensus 114 VKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~e-~fdFL~DiVP 185 (205)
|+.+|-.-.|+..-..|++.+|-..+-.||..|+..|..+|...+++.|+.+||.-++.+++ .|.-|.+++-
T Consensus 7 I~~mMy~fGD~~~P~~eTv~lvE~iv~~~i~~l~~~A~~~a~~rg~~~i~~eDl~F~lR~D~~Kl~Rl~~~L~ 79 (93)
T PF02269_consen 7 IRQMMYGFGDVEEPLPETVDLVEDIVREYIIELCQEAMEVAQRRGSKKIKVEDLLFLLRKDPKKLARLRELLS 79 (93)
T ss_dssp CHHHHHCTTS-SS--HHHHHHHHHHHHHHHHHHHHHHHC----------------------------------
T ss_pred HHHHHHHcCCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCcCcHHHHHHHHhcCHHHHHHHHHHHH
Confidence 67789999999999999999999999999999999999999999999999999999999754 3444444443
No 43
>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=95.43 E-value=0.048 Score=41.98 Aligned_cols=68 Identities=16% Similarity=0.239 Sum_probs=49.1
Q ss_pred CCCCCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCcccchHHHHHhh
Q 028727 105 KVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDR-KKSLAYKHLAAVVS 172 (205)
Q Consensus 105 ~~~~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~k-RKTI~y~DLa~aV~ 172 (205)
....||=+-||+||..--....|+.....+|+-.+-+||-.|+..|..+....+ ..-|++.||..|..
T Consensus 20 RRs~~~k~~ikkli~~~~~~qsv~~~v~i~v~g~aKvFVGEiVE~A~~Vq~~~~~~~pl~P~hlreA~r 88 (90)
T PF04719_consen 20 RRSSFNKAAIKKLINQVLGNQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGETGPLQPDHLREAYR 88 (90)
T ss_dssp HH----HHHHHHHHHHHHS-S---HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--SS--HHHHHHHHH
T ss_pred HHccCCHHHHHHHHHHHcCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHH
Confidence 456799999999999865446899999999999999999999999999876543 45899999998864
No 44
>KOG1757 consensus Histone 2A [Chromatin structure and dynamics]
Probab=95.38 E-value=0.015 Score=47.10 Aligned_cols=77 Identities=22% Similarity=0.266 Sum_probs=59.7
Q ss_pred CCCCCChHHHHHHHhcC-CCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcCCcccccc
Q 028727 105 KVCNFPMGRIKRIFKTQ-SSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQSKYDFLS 181 (205)
Q Consensus 105 ~~~~LPlARVKRIMKsD-pDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~e~fdFL~ 181 (205)
..+.||++||.|.+|.- ...+.|..-|.+..+--.|.+.....+-|-+.+..-+-+.|++.||--+|..+++||-|.
T Consensus 27 aGlqFpVgRihr~LK~r~t~h~rVGataavy~aaileYLTaEVLeLAgNasKdLKvKRitprHlqLAiRGDeELDtLI 104 (131)
T KOG1757|consen 27 AGLQFPVGRIHRHLKTRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLI 104 (131)
T ss_pred cccccchHHHHHHHHHhcccccccchHHHHHHHHHHHHHHHHHHHHcccccccceeeeccchhheeeecCcHHHHHHH
Confidence 46899999999999975 556678777777777666665555555555555555679999999999999999998875
No 45
>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=94.46 E-value=0.23 Score=38.14 Aligned_cols=63 Identities=14% Similarity=0.239 Sum_probs=56.5
Q ss_pred HHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcCC
Q 028727 112 GRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQS 175 (205)
Q Consensus 112 ARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~e 175 (205)
.-|+.+|-.-.|+..-..|++-+|-..+-.||..|+..|..+|+ .++..++.+||.-++.+++
T Consensus 6 ~ei~~mmy~~GD~~~P~~eTv~llE~iv~~~i~~l~~~a~~~A~-~r~~k~~~eD~~FliR~D~ 68 (92)
T cd07978 6 KEIRQMMYGFGDVQNPLPETVDLLEDIVVEYIIELCHKAAEVAQ-RRRGKVKVEDLIFLLRKDP 68 (92)
T ss_pred HHHHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHHHhcCH
Confidence 34888999999999999999999999999999999999999998 5555669999999999865
No 46
>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=94.38 E-value=0.23 Score=36.22 Aligned_cols=61 Identities=11% Similarity=0.223 Sum_probs=47.3
Q ss_pred HHHHHHhc-CCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcC
Q 028727 113 RIKRIFKT-QSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQ 174 (205)
Q Consensus 113 RVKRIMKs-DpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~ 174 (205)
++..+|+. ||. ..+..++--++..-++-||...+..|...|+..+..||...||.-++..+
T Consensus 4 ~l~~Lv~~iDp~-~~ld~~vee~Ll~laddFv~~v~~~ac~lAKhR~s~tle~~Dv~~~Ler~ 65 (68)
T PF03847_consen 4 KLQELVKQIDPN-EKLDPDVEELLLELADDFVDDVVSFACRLAKHRKSSTLEVKDVQLHLERN 65 (68)
T ss_dssp HHHHHHHCC-SS-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHHHHH
T ss_pred HHHHHHHHcCCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHHHHHHHhh
Confidence 45556665 554 78899999999999999999999999999999999999999999888754
No 47
>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=93.49 E-value=0.49 Score=34.20 Aligned_cols=59 Identities=10% Similarity=0.178 Sum_probs=51.4
Q ss_pred HHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhc
Q 028727 114 IKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSE 173 (205)
Q Consensus 114 VKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~ 173 (205)
|-.|++. -++..+++.|+-.++-.+..||+.|++.+..+|...+|....+.||..++..
T Consensus 12 va~il~~-~GF~~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt~~~~~Dv~~al~~ 70 (77)
T PF07524_consen 12 VAQILKH-AGFDSASPSALDTLTDILQRYLQELGRTAKRYAEHAGRTEPNLQDVEQALEE 70 (77)
T ss_pred HHHHHHH-cCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 3345544 3677899999999999999999999999999999999999999999998874
No 48
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C.
Probab=93.48 E-value=0.33 Score=36.18 Aligned_cols=63 Identities=8% Similarity=0.207 Sum_probs=50.1
Q ss_pred HHHHHhcC--CCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcCCc
Q 028727 114 IKRIFKTQ--SSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQSK 176 (205)
Q Consensus 114 VKRIMKsD--pDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~e~ 176 (205)
|-+|+..- +.-..+|+..+.+|+..+=.++..++.+-...|+..+|.||+.+||.-+...+|.
T Consensus 11 v~ki~ee~~~~~~~~~s~~~i~al~ELv~~q~~~~a~DLe~FAkHA~R~tI~~dDV~Ll~Rrn~~ 75 (76)
T PF15630_consen 11 VGKIVEEEAKEKGVEVSPQFIAALTELVYKQLENLAKDLEAFAKHAGRSTINMDDVKLLARRNPS 75 (76)
T ss_dssp HHHHHHHCCCCTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHTTT-HH
T ss_pred HHHHHHHHHhccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHHHhhcCCC
Confidence 45666653 4446799999999999999999999999999999999999999999988887764
No 49
>smart00427 H2B Histone H2B.
Probab=92.79 E-value=0.62 Score=36.03 Aligned_cols=59 Identities=19% Similarity=0.394 Sum_probs=50.0
Q ss_pred HHHHHHhc-CCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhh
Q 028727 113 RIKRIFKT-QSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVS 172 (205)
Q Consensus 113 RVKRIMKs-DpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~ 172 (205)
-|.|++|. .||. .||..|.-+|.-=.--+.+.++.+|...+..++|.||+-.+|-.+|.
T Consensus 6 Yi~kvLKqVhpd~-giS~kam~imnSfvnDiferIa~EAs~L~~~nkr~TltsreIqtAvr 65 (89)
T smart00427 6 YIYKVLKQVHPDT-GISSKAMSIMNSFVNDIFERIAAEASKLARYNKKSTLSSREIQTAVR 65 (89)
T ss_pred HHHHHHHHhCCCc-cccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHH
Confidence 46777776 5886 57888887777777777788999999999999999999999999987
No 50
>KOG3219 consensus Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=91.81 E-value=0.23 Score=43.26 Aligned_cols=69 Identities=14% Similarity=0.279 Sum_probs=58.9
Q ss_pred cCCCCCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhc-CCCcccchHHHHHhhc
Q 028727 104 SKVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKD-RKKSLAYKHLAAVVSE 173 (205)
Q Consensus 104 ~~~~~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~-kRKTI~y~DLa~aV~~ 173 (205)
.....||=+.||++|..=-.-. |+..+.++|+=-+.+||-.|+..|..++... ...-|++.||..|+..
T Consensus 108 fRrs~f~Ka~iKkL~~~itg~~-v~~nv~Ia~~GiaKvFVGEvVEeAl~V~~~~~e~~PLqP~HIREA~rr 177 (195)
T KOG3219|consen 108 FRRSAFPKAQIKKLMSSITGQS-VSENVAIAMAGIAKVFVGEVVEEALDVREEWGESGPLQPKHIREAYRR 177 (195)
T ss_pred HHHhcCCHHHHHHHHHHHhCCc-cCcceeeeecchhhHhHHHHHHHHHHHHHHhccCCCCCcHHHHHHHHH
Confidence 3478899999999999764433 8999999999999999999999999987654 3678999999999874
No 51
>PF15510 CENP-W: Centromere kinetochore component W
Probab=91.38 E-value=0.44 Score=37.47 Aligned_cols=66 Identities=21% Similarity=0.352 Sum_probs=52.4
Q ss_pred CCCChHHHHHHHhcCCCCCcchhhHHHH--------------HHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhh
Q 028727 107 CNFPMGRIKRIFKTQSSDIGITGEAVFL--------------VNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVS 172 (205)
Q Consensus 107 ~~LPlARVKRIMKsDpDV~~ISkEA~~l--------------IaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~ 172 (205)
..-|-+-+|++||--...-.+...+-.+ |---|=+||..|+.+|-..|=.++..+|..+||..|-.
T Consensus 15 rkaPrgfLkrv~Kr~KphlRl~~~~Dllv~~~~f~~~~~~~~vhLncLLFvhrLAEEaRtnA~EnK~~~Ik~~Hv~AaaK 94 (102)
T PF15510_consen 15 RKAPRGFLKRVFKRQKPHLRLETSGDLLVRFCPFSGWQWGGEVHLNCLLFVHRLAEEARTNACENKCGTIKKEHVLAAAK 94 (102)
T ss_pred HhCchHHHHHHHHhcCCceeecccccHHHhhcccccccccceeehhHHHHHHHHHHHHHHHHHHHhhccccHHHHHHHHH
Confidence 3568899999999654444444444445 66678899999999999999999999999999987643
No 52
>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=91.17 E-value=0.35 Score=42.66 Aligned_cols=45 Identities=22% Similarity=0.249 Sum_probs=33.1
Q ss_pred hHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028727 111 MGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAK 156 (205)
Q Consensus 111 lARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~ 156 (205)
-.+|.+|++... +..+..|.+.+|+.|||..|..|+..++..|+.
T Consensus 50 ~~~i~~i~~~~g-~~~~~~d~l~llS~A~e~rLr~lie~~~~~s~h 94 (264)
T PF05236_consen 50 QKRIQKIAKKHG-LKSVDEDVLELLSLATEERLRNLIEKAIVLSRH 94 (264)
T ss_dssp HHHHHHHHHCTT---EE-TCHHHHHHHHHHHHHHHHHHHHH-----
T ss_pred HHHHHHHHHHcC-CcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 357788887765 788999999999999999999999999998864
No 53
>PLN00158 histone H2B; Provisional
Probab=91.16 E-value=1.1 Score=36.27 Aligned_cols=60 Identities=15% Similarity=0.267 Sum_probs=50.9
Q ss_pred HHHHHHHhc-CCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhh
Q 028727 112 GRIKRIFKT-QSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVS 172 (205)
Q Consensus 112 ARVKRIMKs-DpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~ 172 (205)
.-|.|++|. .||.+ ||..|.-+|.-=..-+.+.|+.+|...+..++|.||+-.+|-.+|.
T Consensus 31 ~YI~kVLKQVhPd~g-IS~kaM~ImnSfvnDiferIA~EAs~La~~nkr~TltsrEIqtAvr 91 (116)
T PLN00158 31 IYIYKVLKQVHPDTG-ISSKAMSIMNSFINDIFEKIATEAGKLARYNKKPTVTSREIQTAVR 91 (116)
T ss_pred HHHHHHHHHhCCCCC-ccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHH
Confidence 458888886 68876 5778887777777777788999999999999999999999999987
No 54
>KOG1745 consensus Histones H3 and H4 [Chromatin structure and dynamics]
Probab=90.41 E-value=0.37 Score=39.95 Aligned_cols=74 Identities=16% Similarity=0.313 Sum_probs=64.2
Q ss_pred CcccccCCCCCChHHHHH-HHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhh
Q 028727 99 DDDEVSKVCNFPMGRIKR-IFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVS 172 (205)
Q Consensus 99 ~~~~d~~~~~LPlARVKR-IMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~ 172 (205)
.-..+..-..+|..|.-+ |++.--....+-+.|+.++--|+|.|+-.|-..+.-+|...+|-||-..||--|..
T Consensus 57 QkstdLlI~K~PFqRlvrei~q~f~~dLrfqs~Ai~ALQeA~EayLv~LfEdtnlcAihAkRVTimpkdiQlArr 131 (137)
T KOG1745|consen 57 QKSTDLLIRKLPFQRLVREIAQDFKTDLRFQSSAIAALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARR 131 (137)
T ss_pred HhhhHHHhhcCcHHHHhHHHHhcccccceehHHHHHHHHHHHHHHHHHhccccchhhhccceeEecccceehhhh
Confidence 445566667999999888 88877666889999999999999999999999999999999999999999876543
No 55
>PTZ00463 histone H2B; Provisional
Probab=90.35 E-value=1.4 Score=35.64 Aligned_cols=59 Identities=15% Similarity=0.309 Sum_probs=49.6
Q ss_pred HHHHHHhc-CCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhh
Q 028727 113 RIKRIFKT-QSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVS 172 (205)
Q Consensus 113 RVKRIMKs-DpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~ 172 (205)
-|.+++|. .||.+ ||..|.-+|.--.--..+.++.+|...|..++|.||+-.+|-.+|.
T Consensus 33 YI~KVLKqVhPd~g-IS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~TltsrEIQtAvr 92 (117)
T PTZ00463 33 YIFKVLKQVHPDTG-ISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLSSREIQTAIR 92 (117)
T ss_pred HHHHHHHhhCCCCC-ccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHh
Confidence 47788876 78876 5777877777666666788999999999999999999999999987
No 56
>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=89.23 E-value=2.3 Score=29.79 Aligned_cols=48 Identities=19% Similarity=0.229 Sum_probs=37.4
Q ss_pred CCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028727 108 NFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAK 156 (205)
Q Consensus 108 ~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~ 156 (205)
.+|=+-+.-+|... .+.....-..-+|+-|++.||.+++.+|+++++.
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 35666667777765 3445556678899999999999999999999864
No 57
>KOG3423 consensus Transcription initiation factor TFIID, subunit TAF10 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=89.08 E-value=2.2 Score=36.67 Aligned_cols=70 Identities=19% Similarity=0.182 Sum_probs=58.3
Q ss_pred ccCCCCCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcC--------------CCcccchHHH
Q 028727 103 VSKVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDR--------------KKSLAYKHLA 168 (205)
Q Consensus 103 d~~~~~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~k--------------RKTI~y~DLa 168 (205)
+...+.+|=+-+--+|+.. .+.....-..-||+.|+.-||.+++..|+++|+... +-||+..||.
T Consensus 81 ddYtP~IPDavt~~yL~~a-Gf~~~D~rv~RLvsLaAQKfvSDIa~DA~Q~~k~r~~~~~~~~k~~~kdkK~tLtmeDL~ 159 (176)
T KOG3423|consen 81 DDYTPTIPDAVTDHYLKKA-GFQTSDPRVKRLVSLAAQKFVSDIANDALQHSKIRTKTAIGKDKKQAKDKKYTLTMEDLS 159 (176)
T ss_pred hcCCCCCcHHHHHHHHHhc-CCCcCcHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccccccccccccceeeeHHHHH
Confidence 4567788888888888876 566677778899999999999999999999987543 4688899999
Q ss_pred HHhhc
Q 028727 169 AVVSE 173 (205)
Q Consensus 169 ~aV~~ 173 (205)
.|+..
T Consensus 160 ~AL~E 164 (176)
T KOG3423|consen 160 PALAE 164 (176)
T ss_pred HHHHH
Confidence 88874
No 58
>KOG1744 consensus Histone H2B [Chromatin structure and dynamics]
Probab=88.61 E-value=1.8 Score=35.52 Aligned_cols=64 Identities=11% Similarity=0.198 Sum_probs=46.3
Q ss_pred CCCCCChHHHHHHHh-cCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhh
Q 028727 105 KVCNFPMGRIKRIFK-TQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVS 172 (205)
Q Consensus 105 ~~~~LPlARVKRIMK-sDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~ 172 (205)
.....++-| ++| .+||++ |+..|.-++.-=.-.|++.++.+|...|...+|.||.-.+|-.+|.
T Consensus 37 e~~s~yv~k---vlk~Vhpd~g-is~~a~~vmnsf~ndife~iA~ea~rla~y~krstisSreiqta~r 101 (127)
T KOG1744|consen 37 ESYSEYVYK---VLKQVHPDLG-ISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTISSREIQTAVR 101 (127)
T ss_pred Cceeeehhh---hhhcccCCCC-cCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCcccHHHHHHHHH
Confidence 344556555 444 468877 5555554444444445889999999999999999999999999886
No 59
>PLN00155 histone H2A; Provisional
Probab=87.03 E-value=0.64 Score=33.45 Aligned_cols=39 Identities=23% Similarity=0.284 Sum_probs=32.3
Q ss_pred ccCCCCCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHH
Q 028727 103 VSKVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDK 141 (205)
Q Consensus 103 d~~~~~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtEL 141 (205)
.-..+.||++||.+.++.----..|+..|++.++-.+|.
T Consensus 19 ~rAgL~FPVgri~r~Lr~g~~a~Rvga~apVYlAAVLEY 57 (58)
T PLN00155 19 AKAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEY 57 (58)
T ss_pred cccccccchHHHHHHHhcCChhhcccCCcHHHHHHHHHh
Confidence 344789999999999998766679999999988887764
No 60
>KOG1142 consensus Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=85.67 E-value=2.1 Score=38.81 Aligned_cols=77 Identities=4% Similarity=0.115 Sum_probs=63.1
Q ss_pred CCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcCCccccccccC
Q 028727 108 NFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQSKYDFLSDYV 184 (205)
Q Consensus 108 ~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~e~fdFL~DiV 184 (205)
.|--.+|..+|+.=.....+..|+--+|..-++-||..++..|...|+..+..+|...||.-.++++-.+.|=.+-+
T Consensus 154 il~k~kl~dLvqqId~~~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtlEvrDIqLhLEr~~Nm~iPgf~s 230 (258)
T KOG1142|consen 154 ILSKRKLDDLVQQIDGTTKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTVEVRDIQLHLERNFNMEIPGFSS 230 (258)
T ss_pred cccccchhHHHHhhcCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccchhheeeeeeccccccCCCccc
Confidence 33344555566543445789999999999999999999999999999999999999999999999887777655443
No 61
>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=82.93 E-value=5.9 Score=33.96 Aligned_cols=66 Identities=11% Similarity=0.111 Sum_probs=46.2
Q ss_pred CCCCCChHHH----HHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhc------CCCcccchHHHHHh
Q 028727 105 KVCNFPMGRI----KRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKD------RKKSLAYKHLAAVV 171 (205)
Q Consensus 105 ~~~~LPlARV----KRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~------kRKTI~y~DLa~aV 171 (205)
....|....| .+|++.. .+..|+.+.+.+|+.|||.++..|......++... ..+.+..+|+..-+
T Consensus 41 ~~~fl~~~~l~~~~~~i~~~~-g~~~~~~d~~~lis~a~e~rlr~li~k~~~~s~hR~~~~~~~~r~~~~sdvr~qL 116 (212)
T cd08045 41 DPSFLNPSPLAKKIRKIAKKH-GLKEVDEDVLDLISLALEERLRNLLEKLIEVSEHRVDSEKEDERYEITSDVRKQL 116 (212)
T ss_pred hhhccCHHHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCceeecchHHHHH
Confidence 3445555544 4455444 44589999999999999999999999999988753 22445555555544
No 62
>KOG3467 consensus Histone H4 [Chromatin structure and dynamics]
Probab=80.84 E-value=6.8 Score=30.74 Aligned_cols=61 Identities=18% Similarity=0.213 Sum_probs=50.9
Q ss_pred HHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcC
Q 028727 113 RIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQ 174 (205)
Q Consensus 113 RVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~ 174 (205)
-|+||.+-- .|..|+--..--+..+...||+.....|..++...+|+||+..||.-++...
T Consensus 34 aIRRlARr~-GVkRi~G~~yeE~~~~~k~fl~n~i~~A~~yt~HAKRKTvT~~dvv~~LKR~ 94 (103)
T KOG3467|consen 34 AIRRLARRG-GVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQ 94 (103)
T ss_pred HHHHHHHhc-CcchhchhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhceeeHHHHHHHHHHc
Confidence 356666544 6677777777778889999999999999999999999999999999888754
No 63
>KOG2549 consensus Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=72.58 E-value=14 Score=37.08 Aligned_cols=69 Identities=13% Similarity=0.249 Sum_probs=58.4
Q ss_pred hHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhc---CCccccc
Q 028727 111 MGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSE---QSKYDFL 180 (205)
Q Consensus 111 lARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~---~e~fdFL 180 (205)
-.-|+-+.++= .+..++.|+..+++.=.|.=|..++++|..++...+|.+++.+||..|+.. .+-|.|=
T Consensus 14 ~Es~k~vAEsl-Gi~nl~deaa~~La~dv~yrikEI~Q~aaKfm~hskR~kLtv~DV~~ALr~~nVep~yg~~ 85 (576)
T KOG2549|consen 14 KESVKVVAESL-GITNLNDEAALLLAEDVEYRIKEIVQDAAKFMVHSKRTKLTVDDVDYALRSLNVEPLYGFG 85 (576)
T ss_pred HHHHHHHHHHh-CccccCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcCcHHHHHHHHhhcccccccCcc
Confidence 55566666655 778999999999999999999999999999999999999999999999874 4444443
No 64
>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=69.52 E-value=25 Score=28.68 Aligned_cols=67 Identities=12% Similarity=0.122 Sum_probs=43.4
Q ss_pred HHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcCCcccc
Q 028727 112 GRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQSKYDF 179 (205)
Q Consensus 112 ARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~e~fdF 179 (205)
--|..|+++- .|......++..+---+=.++..+..+|..+|...+|.+|..+||.-||+..=.+.|
T Consensus 16 ~~i~~iL~~~-Gv~~yeprVv~qLLEfayRYt~~vL~DA~~ya~hA~~~~i~~~DVrLAi~~r~~~~f 82 (129)
T PF02291_consen 16 RVIHLILKSM-GVTEYEPRVVNQLLEFAYRYTSDVLEDAQVYADHAGRSTIDADDVRLAIQSRLDHSF 82 (129)
T ss_dssp HHHHHHHHHT-T---B-THHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHHHHT-----
T ss_pred HHHHHHHHHc-CCcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHhhhc
Confidence 3466677665 666666666655544456678889999999999999999999999999996544544
No 65
>PF10979 DUF2786: Protein of unknown function (DUF2786); InterPro: IPR024498 This domain is found in proteins that have no known function.
Probab=69.23 E-value=11 Score=25.15 Aligned_cols=35 Identities=17% Similarity=0.156 Sum_probs=29.9
Q ss_pred hHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHH
Q 028727 111 MGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQ 145 (205)
Q Consensus 111 lARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~ 145 (205)
+.||++++....+.+.-..||-.++.+|-+|..+|
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 57999999998876766679999999999997765
No 66
>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=60.26 E-value=20 Score=31.44 Aligned_cols=40 Identities=18% Similarity=0.271 Sum_probs=31.9
Q ss_pred HHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHH
Q 028727 113 RIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYEC 153 (205)
Q Consensus 113 RVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~ 153 (205)
|+-.|+... ..+.|+.+++-+|..|+|.||..|...++..
T Consensus 211 Rm~~ia~e~-GL~gvs~~~a~ll~~ale~~LK~lI~s~l~~ 250 (252)
T PF12767_consen 211 RMEQIAWEH-GLGGVSDDCANLLNLALEVHLKNLIKSCLDL 250 (252)
T ss_pred HHHHHHHHc-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 444444333 4467999999999999999999999998865
No 67
>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=53.61 E-value=28 Score=33.26 Aligned_cols=61 Identities=10% Similarity=0.218 Sum_probs=52.8
Q ss_pred HHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhc
Q 028727 112 GRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSE 173 (205)
Q Consensus 112 ARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~ 173 (205)
.-||-...+ -.+++|..|++-+++--.|.=|..++++|.......+|..++-+||..|+..
T Consensus 9 et~KdvAes-lGi~Ni~Dd~l~alamDlEYRI~ev~qea~KFmvhSKRtvLt~dDis~ALr~ 69 (450)
T COG5095 9 ETLKDVAES-LGISNIDDDALRALAMDLEYRIKEVCQEASKFMVHSKRTVLTIDDISYALRS 69 (450)
T ss_pred HHHHHHHHH-cCCcccccHHHHHHHHhHHHHHHHHHHHHHHHhhcccceeeeHHhHHHHHHh
Confidence 334444444 3788999999999999999999999999999999999999999999999874
No 68
>KOG2389 consensus Predicted bromodomain transcription factor [Transcription]
Probab=51.13 E-value=49 Score=31.45 Aligned_cols=69 Identities=4% Similarity=0.076 Sum_probs=57.5
Q ss_pred cCCCCCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhc
Q 028727 104 SKVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSE 173 (205)
Q Consensus 104 ~~~~~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~ 173 (205)
.....|-..+|..|+++= .+..+-..|+-.++--+..||+.|.+.|+.++...+|-..+..||..+++.
T Consensus 25 ~ya~sla~~avaQIcqsl-g~~~~~~sale~Ltd~~~qyvQ~lgk~a~~~~n~anR~epnl~Div~Al~d 93 (353)
T KOG2389|consen 25 EYAFSLARVAVAQICQSL-GYSSTQNSALETLTDVLQQYVQNLGKTAHRYSNLANRTEPNLFDIVLALQD 93 (353)
T ss_pred HHHHHHHHHHHHHHHHhc-CCcccccHHHHHHHHHHHHHHHHHHhhhhhhhhhcCCCCccHHHHHHHHHH
Confidence 334455566788999986 445666669999999999999999999999999999999999999998875
No 69
>COG5248 TAF19 Transcription initiation factor TFIID, subunit TAF13 [Transcription]
Probab=43.52 E-value=1.1e+02 Score=24.96 Aligned_cols=65 Identities=8% Similarity=0.133 Sum_probs=52.1
Q ss_pred CChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcCC
Q 028727 109 FPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQS 175 (205)
Q Consensus 109 LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~e 175 (205)
|=+--|+-+|=.=.||..--.+++.++---+--+|..|+..|+..|+ .|..+..+|+.-++..+|
T Consensus 10 LF~KDikslmYayGDvv~P~~dt~~~L~e~V~dY~~~~ctna~~~Aq--~rnK~k~eDfkfaLr~Dp 74 (126)
T COG5248 10 LFMKDIKSLMYAYGDVVAPRYDTAEALHEYVLDYMSILCTNAHNMAQ--VRNKTKTEDFKFALRRDP 74 (126)
T ss_pred HHHHHHHHHHHHhCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHH--hcccchHHHHHHHHhhCh
Confidence 33445677777778888888888888887777888889999999987 577889999999988765
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=42.65 E-value=43 Score=28.20 Aligned_cols=49 Identities=10% Similarity=0.217 Sum_probs=43.0
Q ss_pred cchhhHHHHHHHHHHH---HHHHHHHHHHHHHHhcCCCcccchHHHHHhhcC
Q 028727 126 GITGEAVFLVNKATDK---FLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQ 174 (205)
Q Consensus 126 ~ISkEA~~lIaKAtEL---FI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~ 174 (205)
.++.+++-.|...+.= .|..|+..++..|-..+.+.|..++|..++...
T Consensus 215 ~~~~~~~~~i~~~s~G~p~~i~~l~~~~~~~a~~~~~~~i~~~~v~~~~~~~ 266 (269)
T TIGR03015 215 VFSEGAFDAIHRFSRGIPRLINILCDRLLLSAFLEEKREIGGEEVREVIAEI 266 (269)
T ss_pred CcCHHHHHHHHHHcCCcccHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHh
Confidence 5788999888888863 799999999999988999999999999999853
No 71
>KOG4336 consensus TBP-associated transcription factor Prodos [Transcription]
Probab=35.19 E-value=1.5e+02 Score=28.05 Aligned_cols=63 Identities=6% Similarity=0.075 Sum_probs=54.9
Q ss_pred hHHHHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhc
Q 028727 111 MGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSE 173 (205)
Q Consensus 111 lARVKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~ 173 (205)
++-|=-+|..+-....|+.-|+.-+.-+..-.|..+.+.+..+|.-.+|...++.||.-.+..
T Consensus 7 l~~VV~~Ll~~~gfd~is~~aletlvell~~yi~eigrq~~n~celagRT~pT~~Dv~l~Li~ 69 (323)
T KOG4336|consen 7 LAPVVSNLLKTKGFDSISNAALETLVELLQSYIREIGRQLHNYCELAGRTIPTQGDVKLTLIE 69 (323)
T ss_pred HHHHHHHHHHHhCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHHHHHHH
Confidence 456667777777888899999998888888899999999999999999999999999987763
No 72
>PF13335 Mg_chelatase_2: Magnesium chelatase, subunit ChlI
Probab=33.39 E-value=1.4e+02 Score=22.60 Aligned_cols=62 Identities=16% Similarity=0.243 Sum_probs=48.6
Q ss_pred cCCCCCChHHHHHHHhcCCCCCcchhhHHHHHHHHHHHH------HHHHHHHHHHHHHhcCCCcccchHHHHHhh
Q 028727 104 SKVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKF------LEQFCEDAYECCAKDRKKSLAYKHLAAVVS 172 (205)
Q Consensus 104 ~~~~~LPlARVKRIMKsDpDV~~ISkEA~~lIaKAtELF------I~~La~~A~~~A~~~kRKTI~y~DLa~aV~ 172 (205)
...-.||..-|.+.+.++ .++..++..|.+-| +..+.+-|+.+|-..+...|...||..|+.
T Consensus 27 ~~Na~l~~~~l~~~~~l~-------~~~~~~l~~~~~~~~lS~R~~~rilrvARTIADL~~~~~I~~~hi~EAl~ 94 (96)
T PF13335_consen 27 KCNAQLPGEELRKYCPLS-------SEAKKLLEQAAEKLNLSARGYHRILRVARTIADLEGSERITREHIAEALS 94 (96)
T ss_pred CccccCCHHHHHhHcCCC-------HHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHhHcCCCCCCHHHHHHHHh
Confidence 345678888888876655 45666666666655 457888899999999999999999999986
No 73
>COG5162 Transcription initiation factor TFIID, subunit TAF10 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=32.31 E-value=1.9e+02 Score=25.28 Aligned_cols=30 Identities=20% Similarity=0.277 Sum_probs=24.5
Q ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028727 126 GITGEAVFLVNKATDKFLEQFCEDAYECCA 155 (205)
Q Consensus 126 ~ISkEA~~lIaKAtELFI~~La~~A~~~A~ 155 (205)
.+..-.--|++.++.-||.+++..||++.+
T Consensus 105 ~~D~rvKkLl~L~aqKFvsDiA~dayqYsr 134 (197)
T COG5162 105 TSDQRVKKLLSLLAQKFVSDIAVDAYQYSR 134 (197)
T ss_pred eccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555679999999999999999998754
No 74
>KOG0785 consensus Isocitrate dehydrogenase, alpha subunit [Amino acid transport and metabolism]
Probab=31.48 E-value=58 Score=30.98 Aligned_cols=49 Identities=20% Similarity=0.287 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcCCcccccc
Q 028727 132 VFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQSKYDFLS 181 (205)
Q Consensus 132 ~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~e~fdFL~ 181 (205)
+..|-.-||.=-..+++-||++|++++|+.++.-|=++.+...+.+ ||+
T Consensus 169 vqsiK~IT~~AS~Ria~~AF~yAr~~~R~~vtvvHKaNImr~tDGL-Fle 217 (365)
T KOG0785|consen 169 VQSIKLITEAASRRIAEYAFEYARQNGRKRVTVVHKANIMRMTDGL-FLE 217 (365)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcCCCceEEEehhhhhhhcchH-HHH
Confidence 3334444444455889999999999999999999999988887765 664
No 75
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=29.86 E-value=2.7e+02 Score=25.02 Aligned_cols=64 Identities=11% Similarity=0.093 Sum_probs=45.2
Q ss_pred hHHHHHHHhcCC----CCCcchhhHHHHHHHHHHH------HHHHHHHHHHHHHHhcCCCcccchHHHHHhhcC
Q 028727 111 MGRIKRIFKTQS----SDIGITGEAVFLVNKATDK------FLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQ 174 (205)
Q Consensus 111 lARVKRIMKsDp----DV~~ISkEA~~lIaKAtEL------FI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~ 174 (205)
..-+..|++.-- ..+.++.+++-.++..+.- ++-.|+..|+..|...++.+|..+||..|+...
T Consensus 209 ~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~~~~I~~~~v~~a~~~~ 282 (394)
T PRK00411 209 ADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREGSRKVTEEDVRKAYEKS 282 (394)
T ss_pred HHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHH
Confidence 455666665310 1235788888777776643 344677888888888889999999999998864
No 76
>KOG3901 consensus Transcription initiation factor IID subunit [Transcription]
Probab=24.86 E-value=3.6e+02 Score=21.74 Aligned_cols=59 Identities=10% Similarity=0.220 Sum_probs=45.3
Q ss_pred HHHHHhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcCC
Q 028727 114 IKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQS 175 (205)
Q Consensus 114 VKRIMKsDpDV~~ISkEA~~lIaKAtELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~e 175 (205)
|+-+|=.=.|+..=-.+++-++---+--||..|+..|..+. +|..++.+||.-+|..+|
T Consensus 15 l~~mmYgfGDd~nP~~~tv~~Le~iV~~Yi~elt~~a~~~g---~rgk~~veD~~f~lRkDp 73 (109)
T KOG3901|consen 15 LRSMMYGFGDDVNPYPETVDLLEDIVLEYITELTHAAMEIG---KRGKVKVEDFKFLLRKDP 73 (109)
T ss_pred HHHHHHhcCCCCCccHhHHHHHHHHHHHHHHHHHHHHHHhc---ccCceeHHHHHHHHHhCh
Confidence 44455555666667778888888777778888888777764 788899999999999875
No 77
>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=24.58 E-value=3.9e+02 Score=23.60 Aligned_cols=50 Identities=8% Similarity=0.020 Sum_probs=36.0
Q ss_pred CcchhhHHHHHHHHHH------HHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcC
Q 028727 125 IGITGEAVFLVNKATD------KFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQ 174 (205)
Q Consensus 125 ~~ISkEA~~lIaKAtE------LFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~ 174 (205)
..++.+++-+++.-+. ..+..++..|+..|...++..|+.+||..|+...
T Consensus 219 ~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~~~a~~~~~~~it~~~v~~a~~~~ 274 (365)
T TIGR02928 219 GVLDDGVIPLCAALAAQEHGDARKAIDLLRVAGEIAEREGAERVTEDHVEKAQEKI 274 (365)
T ss_pred CCCChhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence 3477777766554332 2344677888888888888999999999887654
No 78
>PF13654 AAA_32: AAA domain; PDB: 3K1J_B.
Probab=21.80 E-value=3.1e+02 Score=27.01 Aligned_cols=62 Identities=16% Similarity=0.180 Sum_probs=43.3
Q ss_pred HHHHHHHhcCCCCCcchhhHHHHHHHHHH-----------HHHHHHHHHHHHHHHhcCCCcccchHHHHHhhcC
Q 028727 112 GRIKRIFKTQSSDIGITGEAVFLVNKATD-----------KFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSEQ 174 (205)
Q Consensus 112 ARVKRIMKsDpDV~~ISkEA~~lIaKAtE-----------LFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~~ 174 (205)
.-|..|++.. ...-++.+|+..|-...- .-|..|..+|...|+..+...|+..||..||...
T Consensus 434 ~~i~~~~~~~-~L~~~~~~Av~~li~~~~R~~q~kLsl~~~~l~~ll~EA~~~A~~~~~~~I~~~~V~~Ai~~r 506 (509)
T PF13654_consen 434 RFIASICQKE-GLPPFDRSAVARLIEYSARLDQDKLSLRFSWLADLLREANYWARKEGAKVITAEHVEQAIEER 506 (509)
T ss_dssp HHHHHHHHHH-SS--BBHHHHHHHHHHHHHCC-SEEE--HHHHHHHHHHHHHHHHHCT-SSB-HHHHHHHHHH-
T ss_pred HHHHHHHHhC-CCCCCCHHHHHHHHHHHHHHhCCEeCCCHHHHHHHHHHHHHHHHHhCCCccCHHHHHHHHHcc
Confidence 3566666654 566777777766555442 2567899999999999999999999999999853
No 79
>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=20.46 E-value=4.1e+02 Score=26.62 Aligned_cols=63 Identities=14% Similarity=0.043 Sum_probs=47.0
Q ss_pred hHHHHHHHhcCCCCCcchhhHHHHHHH-HH------------HHHHHHHHHHHHHHHHhcCCCcccchHHHHHhhc
Q 028727 111 MGRIKRIFKTQSSDIGITGEAVFLVNK-AT------------DKFLEQFCEDAYECCAKDRKKSLAYKHLAAVVSE 173 (205)
Q Consensus 111 lARVKRIMKsDpDV~~ISkEA~~lIaK-At------------ELFI~~La~~A~~~A~~~kRKTI~y~DLa~aV~~ 173 (205)
+..|.+.++.+.....++.+|+..|-+ ++ ..=+..|++.|...|...++..|+.+||..|++.
T Consensus 315 ~~~i~~~~~r~G~l~~~s~~Av~~Li~~~~R~ag~r~~lsl~~R~L~~llR~A~~iA~~~~~~~I~~ehV~~Ai~~ 390 (608)
T TIGR00764 315 VQFVAQEVKKDGRIPHFTRDAVEEIVREAQRRAGRKDHLTLRLRELGGLVRAAGDIAKSSGKVYVTAEHVLKAKKL 390 (608)
T ss_pred HHHHHHHHHHhCCCCcCCHHHHHHHHHHHHHHHhcccccCCCHHHHHHHHHHHHHHHHhcCCceecHHHHHHHHHH
Confidence 456677777675566889988876653 22 2446688888888888888899999999998774
Done!