Query 028837
Match_columns 203
No_of_seqs 134 out of 535
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 03:19:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028837.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028837hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1657 CCAAT-binding factor, 99.8 5.9E-22 1.3E-26 173.0 3.3 93 99-191 65-159 (236)
2 COG5208 HAP5 CCAAT-binding fac 99.8 8.2E-21 1.8E-25 165.5 0.7 87 103-189 104-192 (286)
3 PF00808 CBFD_NFYB_HMF: Histon 99.8 3.5E-19 7.5E-24 125.6 4.7 60 108-167 2-61 (65)
4 KOG1659 Class 2 transcription 99.7 3.6E-19 7.7E-24 153.7 2.4 85 100-184 5-91 (224)
5 COG5247 BUR6 Class 2 transcrip 99.7 1.3E-17 2.8E-22 130.5 2.6 83 101-183 16-100 (113)
6 KOG1658 DNA polymerase epsilon 99.3 7.8E-13 1.7E-17 109.9 3.1 81 104-184 55-137 (162)
7 KOG0869 CCAAT-binding factor, 99.0 3.8E-10 8.2E-15 94.3 4.5 90 101-193 25-117 (168)
8 cd00074 H2A Histone 2A; H2A is 98.8 5.8E-09 1.3E-13 82.9 5.1 78 103-180 15-94 (115)
9 COG5262 HTA1 Histone H2A [Chro 98.7 4.9E-09 1.1E-13 84.4 2.9 78 103-180 21-100 (132)
10 KOG0870 DNA polymerase epsilon 98.7 1.6E-08 3.5E-13 85.1 4.1 92 104-198 6-101 (172)
11 smart00414 H2A Histone 2A. 98.4 2.5E-07 5.5E-12 72.6 4.5 75 105-179 6-82 (106)
12 COG2036 HHT1 Histones H3 and H 98.4 4.4E-07 9.5E-12 69.7 4.4 65 102-167 13-77 (91)
13 PLN00154 histone H2A; Provisio 98.3 4.8E-07 1E-11 74.1 4.3 76 105-180 35-113 (136)
14 PTZ00017 histone H2A; Provisio 98.3 4E-07 8.6E-12 74.4 3.7 75 105-179 24-100 (134)
15 KOG1756 Histone 2A [Chromatin 98.2 7.4E-07 1.6E-11 72.4 2.5 78 103-180 22-101 (131)
16 PLN00153 histone H2A; Provisio 98.1 2.5E-06 5.5E-11 69.3 3.7 75 105-179 21-97 (129)
17 PLN00157 histone H2A; Provisio 98.1 2.8E-06 6.1E-11 69.3 3.9 76 105-180 23-101 (132)
18 PF00125 Histone: Core histone 98.1 3.7E-06 7.9E-11 60.0 4.0 63 105-167 5-68 (75)
19 PLN00156 histone H2AX; Provisi 98.1 2.9E-06 6.3E-11 69.7 3.8 75 105-179 26-102 (139)
20 cd00076 H4 Histone H4, one of 98.0 1.6E-05 3.4E-10 60.4 5.5 59 108-167 13-71 (85)
21 smart00803 TAF TATA box bindin 98.0 2.3E-05 5.1E-10 56.4 6.0 59 108-167 2-60 (65)
22 PTZ00252 histone H2A; Provisio 97.9 1.1E-05 2.4E-10 66.1 4.5 77 104-180 21-102 (134)
23 PLN00035 histone H4; Provision 97.9 3E-05 6.6E-10 60.9 5.5 69 108-177 29-101 (103)
24 smart00417 H4 Histone H4. 97.8 7.7E-05 1.7E-09 55.4 6.3 59 108-167 13-71 (74)
25 KOG0871 Class 2 transcription 97.7 4.6E-05 9.9E-10 63.6 4.7 76 105-184 9-87 (156)
26 PTZ00015 histone H4; Provision 97.7 0.0001 2.2E-09 57.9 5.5 60 107-167 29-88 (102)
27 cd07981 TAF12 TATA Binding Pro 97.5 0.00016 3.6E-09 52.5 4.8 63 109-172 2-67 (72)
28 KOG1658 DNA polymerase epsilon 97.3 0.00014 3.1E-09 61.0 2.5 74 105-183 8-83 (162)
29 smart00428 H3 Histone H3. 97.2 0.00098 2.1E-08 52.5 6.3 68 100-167 24-94 (105)
30 COG5150 Class 2 transcription 96.7 0.0012 2.5E-08 54.4 2.7 65 106-170 9-76 (148)
31 cd08048 TAF11 TATA Binding Pro 96.7 0.0042 9.2E-08 47.0 5.4 62 105-167 13-77 (85)
32 PLN00121 histone H3; Provision 96.5 0.0066 1.4E-07 50.0 5.9 68 100-167 57-125 (136)
33 PTZ00018 histone H3; Provision 96.4 0.0085 1.8E-07 49.3 5.7 67 100-167 57-125 (136)
34 PF15511 CENP-T: Centromere ki 96.3 0.0052 1.1E-07 57.8 4.5 62 105-166 348-414 (414)
35 PLN00160 histone H3; Provision 96.0 0.017 3.8E-07 45.0 5.4 67 101-167 17-85 (97)
36 PLN00161 histone H3; Provision 95.9 0.024 5.1E-07 46.7 6.2 68 100-167 50-119 (135)
37 cd07979 TAF9 TATA Binding Prot 95.7 0.013 2.8E-07 46.5 3.7 66 112-178 5-72 (117)
38 KOG1757 Histone 2A [Chromatin 95.6 0.013 2.8E-07 47.5 3.5 71 105-179 27-104 (131)
39 PF09415 CENP-X: CENP-S associ 95.3 0.011 2.4E-07 43.6 1.9 58 110-167 1-61 (72)
40 PF02269 TFIID-18kDa: Transcri 95.2 0.027 5.9E-07 43.0 4.0 70 114-183 7-79 (93)
41 smart00576 BTP Bromodomain tra 94.7 0.089 1.9E-06 38.4 5.3 53 114-167 12-64 (77)
42 PF02969 TAF: TATA box binding 94.0 0.11 2.3E-06 37.9 4.3 59 108-167 3-61 (66)
43 cd08050 TAF6 TATA Binding Prot 93.8 0.13 2.8E-06 47.2 5.6 56 111-167 2-57 (343)
44 PF03847 TFIID_20kDa: Transcri 93.8 0.2 4.3E-06 36.5 5.5 55 113-167 4-58 (68)
45 PF04719 TAFII28: hTAFII28-lik 93.2 0.14 3.1E-06 39.3 4.2 64 104-167 19-83 (90)
46 KOG1142 Transcription initiati 92.3 0.44 9.6E-06 43.0 6.6 75 107-181 153-229 (258)
47 cd07978 TAF13 The TATA Binding 92.1 0.27 5.8E-06 37.7 4.4 60 112-172 6-67 (92)
48 PF15630 CENP-S: Kinetochore c 91.4 0.22 4.8E-06 37.1 3.1 54 114-167 11-66 (76)
49 KOG1745 Histones H3 and H4 [Ch 90.9 0.38 8.2E-06 39.8 4.4 67 101-167 59-126 (137)
50 smart00427 H2B Histone H2B. 90.5 0.47 1E-05 36.6 4.3 55 114-169 7-64 (89)
51 PF05236 TAF4: Transcription i 90.5 0.42 9E-06 42.1 4.6 45 112-157 51-95 (264)
52 PLN00155 histone H2A; Provisio 87.0 0.62 1.3E-05 33.5 2.6 37 105-141 21-57 (58)
53 KOG3219 Transcription initiati 86.4 0.42 9E-06 41.6 1.8 64 105-169 109-175 (195)
54 PF15510 CENP-W: Centromere ki 85.9 0.85 1.8E-05 35.8 3.1 61 107-167 15-89 (102)
55 PF03540 TFIID_30kDa: Transcri 84.2 1.7 3.8E-05 30.3 3.7 47 109-156 3-49 (51)
56 PF07524 Bromo_TP: Bromodomain 83.5 3.7 8.1E-05 29.5 5.4 47 121-167 18-64 (77)
57 PLN00158 histone H2B; Provisio 83.3 2 4.4E-05 34.7 4.3 57 112-169 31-90 (116)
58 KOG1744 Histone H2B [Chromatin 82.9 2.8 6.1E-05 34.4 5.0 58 106-167 38-96 (127)
59 cd08045 TAF4 TATA Binding Prot 82.6 4.3 9.3E-05 34.7 6.3 77 103-181 39-122 (212)
60 PTZ00463 histone H2B; Provisio 82.0 2.9 6.2E-05 33.9 4.7 55 114-169 34-91 (117)
61 PF10979 DUF2786: Protein of u 69.5 10 0.00022 25.3 4.0 35 111-145 4-38 (43)
62 KOG3423 Transcription initiati 68.6 8.3 0.00018 33.2 4.3 53 105-158 83-135 (176)
63 KOG2549 Transcription initiati 66.0 8.8 0.00019 38.4 4.4 67 111-178 14-85 (576)
64 PF02291 TFIID-31kDa: Transcri 60.3 12 0.00025 30.5 3.5 64 113-177 17-82 (129)
65 KOG3467 Histone H4 [Chromatin 57.8 15 0.00033 28.8 3.6 54 113-167 34-87 (103)
66 PF12767 SAGA-Tad1: Transcript 51.9 35 0.00075 29.9 5.3 33 122-154 219-251 (252)
67 COG5095 TAF6 Transcription ini 45.8 29 0.00062 33.2 4.1 46 122-167 18-63 (450)
68 KOG0750 Mitochondrial solute c 22.3 1E+02 0.0022 28.7 3.4 77 106-189 128-206 (304)
No 1
>KOG1657 consensus CCAAT-binding factor, subunit C (HAP5) [Transcription]
Probab=99.84 E-value=5.9e-22 Score=173.00 Aligned_cols=93 Identities=29% Similarity=0.453 Sum_probs=88.3
Q ss_pred CccccccCCCCChHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce--EEeeCCccc
Q 028837 99 DDDEVSKVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL--VVSEQSKYD 176 (203)
Q Consensus 99 ~~~~~~~~~~LPlARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL--aV~~~~~fd 176 (203)
.+..++....|||+|||+|||.|++|.+|+.||++++++|||+||..|+..+|.++..++|++|++.|| +|...+.|+
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 456788999999999999999999999999999999999999999999999999999999999999999 999999999
Q ss_pred ccccccCCcccHHHH
Q 028837 177 FLSDYVPEKIKAEDA 191 (203)
Q Consensus 177 FL~DIVP~ki~l~d~ 191 (203)
||.||||+...++.+
T Consensus 145 FL~DivP~~~~~~~~ 159 (236)
T KOG1657|consen 145 FLRDIVPRKILAEKY 159 (236)
T ss_pred ceeccccchhccccc
Confidence 999999998877654
No 2
>COG5208 HAP5 CCAAT-binding factor, subunit C [Transcription]
Probab=99.80 E-value=8.2e-21 Score=165.52 Aligned_cols=87 Identities=29% Similarity=0.465 Sum_probs=82.3
Q ss_pred cccCCCCChHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce--EEeeCCccccccc
Q 028837 103 VSKVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL--VVSEQSKYDFLSD 180 (203)
Q Consensus 103 ~~~~~~LPlARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL--aV~~~~~fdFL~D 180 (203)
....+.|||+|||++||.|.||.+||.||+++++++||.||..||-+||.+|..++|+||+..|| +|...+-||||.|
T Consensus 104 ~~k~h~LPlARIkkvMKtdedVkMisaEaPvlFak~~EiFI~ELTmRAW~~ae~NkRRtLQksDia~Av~kSeMfDFLid 183 (286)
T COG5208 104 LLKDHNLPLARIKKVMKTDEDVKMISAEAPVLFAKITEIFIEELTMRAWINAEENKRRTLQKSDIAAAVKKSEMFDFLID 183 (286)
T ss_pred HHHhccCcHHHHHHHHhcccchhheecccchHHHHHHHHHHHHHHHHHHHHHhHhhhhHHHHHHHHHHHHHHHHHhHHhh
Confidence 45778899999999999999999999999999999999999999999999999999999999999 9999999999999
Q ss_pred ccCCcccHH
Q 028837 181 YVPEKIKAE 189 (203)
Q Consensus 181 IVP~ki~l~ 189 (203)
|||+...-.
T Consensus 184 ivpr~p~n~ 192 (286)
T COG5208 184 IVPRNPFNH 192 (286)
T ss_pred hccCCCccc
Confidence 999875433
No 3
>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=99.77 E-value=3.5e-19 Score=125.64 Aligned_cols=60 Identities=28% Similarity=0.628 Sum_probs=56.2
Q ss_pred CCChHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce
Q 028837 108 NFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL 167 (203)
Q Consensus 108 ~LPlARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL 167 (203)
.||++||+||||.+|++..||+||+++|++|+|+||++|+..|+.+|+.++||||+|+||
T Consensus 2 ~lP~a~vkri~k~~~~~~~vs~ea~~~i~~a~e~Fi~~l~~~A~~~a~~~~rkti~~~Dv 61 (65)
T PF00808_consen 2 SLPLARVKRIMKSDPDVMRVSKEAVEAIAKAAEEFIQYLAKEANEIAQRDKRKTITYEDV 61 (65)
T ss_dssp SS-HHHHHHHHHHTSTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEE-HHHH
T ss_pred CCChHHHHHHhccCCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHH
Confidence 699999999999999999999999999999999999999999999999999999999998
No 4
>KOG1659 consensus Class 2 transcription repressor NC2, alpha subunit (DRAP1) [Transcription]
Probab=99.75 E-value=3.6e-19 Score=153.70 Aligned_cols=85 Identities=24% Similarity=0.396 Sum_probs=80.4
Q ss_pred ccccccCCCCChHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce--EEeeCCcccc
Q 028837 100 DDEVSKVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL--VVSEQSKYDF 177 (203)
Q Consensus 100 ~~~~~~~~~LPlARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL--aV~~~~~fdF 177 (203)
.......++||++|||+|||+|.||++|++.++++|++|+|||++.|+..++++++..+.|||+..|| ||...+.|+|
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 45667789999999999999999999999999999999999999999999999999999999999999 9999999999
Q ss_pred cccccCC
Q 028837 178 LSDYVPE 184 (203)
Q Consensus 178 L~DIVP~ 184 (203)
|.++|-.
T Consensus 85 Lk~~v~~ 91 (224)
T KOG1659|consen 85 LKEVVEK 91 (224)
T ss_pred HHHHHHh
Confidence 9997644
No 5
>COG5247 BUR6 Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription]
Probab=99.68 E-value=1.3e-17 Score=130.49 Aligned_cols=83 Identities=20% Similarity=0.352 Sum_probs=78.6
Q ss_pred cccccCCCCChHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce--EEeeCCccccc
Q 028837 101 DEVSKVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL--VVSEQSKYDFL 178 (203)
Q Consensus 101 ~~~~~~~~LPlARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL--aV~~~~~fdFL 178 (203)
..--..++||++|||+||++|.||+.|++.+++++++|.|+||..|...+...|...+.+.|+..+| ++..++.|+||
T Consensus 16 ~~~~~ktrFP~ar~KkIMQ~deDiGKV~q~tPVIaskalE~Fl~~iv~~s~k~aR~~~skR~t~e~lk~a~~sdekFdFL 95 (113)
T COG5247 16 SQKKKKTRFPIARLKKIMQLDEDIGKVGQSTPVIASKALEMFLTEIVGLSLKEARKKSSKRMTSEFLKRATESDEKFDFL 95 (113)
T ss_pred hhhhhhhcCCHHHHHHHHHhhhhhhhhhhcchHHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHhhhHHHHHH
Confidence 3346789999999999999999999999999999999999999999999999999999999999999 99999999999
Q ss_pred ccccC
Q 028837 179 SDYVP 183 (203)
Q Consensus 179 ~DIVP 183 (203)
.+++-
T Consensus 96 ~~~~~ 100 (113)
T COG5247 96 KNMEQ 100 (113)
T ss_pred HHHHH
Confidence 99864
No 6
>KOG1658 consensus DNA polymerase epsilon, subunit C [Replication, recombination and repair]
Probab=99.32 E-value=7.8e-13 Score=109.92 Aligned_cols=81 Identities=20% Similarity=0.391 Sum_probs=77.3
Q ss_pred ccCCCCChHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce--EEeeCCcccccccc
Q 028837 104 SKVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL--VVSEQSKYDFLSDY 181 (203)
Q Consensus 104 ~~~~~LPlARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL--aV~~~~~fdFL~DI 181 (203)
...++|||+||+.+|++|||+.....++.++|++|+|+||+.|...+|.+++..+|+|++..|+ +|...++|.||.+.
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 4568999999999999999999999999999999999999999999999999999999999999 99999999999987
Q ss_pred cCC
Q 028837 182 VPE 184 (203)
Q Consensus 182 VP~ 184 (203)
.+-
T Consensus 135 ~d~ 137 (162)
T KOG1658|consen 135 LDT 137 (162)
T ss_pred ccc
Confidence 663
No 7
>KOG0869 consensus CCAAT-binding factor, subunit A (HAP3) [Transcription]
Probab=98.99 E-value=3.8e-10 Score=94.34 Aligned_cols=90 Identities=20% Similarity=0.292 Sum_probs=81.1
Q ss_pred cccccCCCCChHHHHHHHhc-CCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce--EEeeCCcccc
Q 028837 101 DEVSKVCNFPMGRIKRIFKT-QSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL--VVSEQSKYDF 177 (203)
Q Consensus 101 ~~~~~~~~LPlARVKrIMK~-DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL--aV~~~~~fdF 177 (203)
.-...+-.|||+.|-||||. -|...+||+||-..|..|+..||..+|.+|.+.|++.+||||+-+|| |+. .|.|
T Consensus 25 ~~reqDr~LPIANV~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~---tLGF 101 (168)
T KOG0869|consen 25 SLREQDRFLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMS---TLGF 101 (168)
T ss_pred ccchhhhhccHHHHHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHH---HcCc
Confidence 44556778999999999995 69999999999999999999999999999999999999999999999 876 8888
Q ss_pred cccccCCcccHHHHHH
Q 028837 178 LSDYVPEKIKAEDALA 193 (203)
Q Consensus 178 L~DIVP~ki~l~d~l~ 193 (203)
-..+-|.++.|..|.+
T Consensus 102 e~Y~eplkiyL~kYRe 117 (168)
T KOG0869|consen 102 ENYAEPLKIYLQKYRE 117 (168)
T ss_pred HhHHHHHHHHHHHHHH
Confidence 8888898887776665
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=98.81 E-value=5.8e-09 Score=82.86 Aligned_cols=78 Identities=21% Similarity=0.281 Sum_probs=71.7
Q ss_pred cccCCCCChHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce--EEeeCCccccccc
Q 028837 103 VSKVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL--VVSEQSKYDFLSD 180 (203)
Q Consensus 103 ~~~~~~LPlARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL--aV~~~~~fdFL~D 180 (203)
.-..+.||++||.|+|+..--...|+..|++.++-++|.|+..+...|...|...++++|++.|| +|.++++|++|-.
T Consensus 15 ~ragL~fPV~ri~R~Lk~~~~a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lAi~nD~EL~~L~~ 94 (115)
T cd00074 15 ARAGLQFPVGRIHRYLKKGRYAERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLAVRNDEELNKLLK 94 (115)
T ss_pred cccCccCcHHHHHHHHHcCccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHHHhccHHHHHHHc
Confidence 34478999999999999877778999999999999999999999999999999999999999999 9999999996653
No 9
>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]
Probab=98.75 E-value=4.9e-09 Score=84.37 Aligned_cols=78 Identities=21% Similarity=0.315 Sum_probs=73.6
Q ss_pred cccCCCCChHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce--EEeeCCccccccc
Q 028837 103 VSKVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL--VVSEQSKYDFLSD 180 (203)
Q Consensus 103 ~~~~~~LPlARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL--aV~~~~~fdFL~D 180 (203)
.-..+.||++||+||||-+.--+.|++.|+++++-++|..+.+++.-|-..|...+.+.|.+.|| +|.++++|+||..
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 34568999999999999888899999999999999999999999999999999999999999999 9999999999976
No 10
>KOG0870 consensus DNA polymerase epsilon, subunit D [Transcription]
Probab=98.68 E-value=1.6e-08 Score=85.15 Aligned_cols=92 Identities=18% Similarity=0.233 Sum_probs=78.2
Q ss_pred ccCCCCChHHHHHHHhc-CCCc-cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce--EEeeCCcccccc
Q 028837 104 SKVCNFPMGRIKRIFKT-QSSD-IGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL--VVSEQSKYDFLS 179 (203)
Q Consensus 104 ~~~~~LPlARVKrIMK~-DpDv-~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL--aV~~~~~fdFL~ 179 (203)
.-.+.||.+-|.||+|- -|+. ..|++||..+|++|+-+||.+|+.-|...|...+|+||+.+|| ++. +++|-.
T Consensus 6 i~dl~lP~AiI~rlvke~l~E~~vsisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~sadDVl~aL~---Eiefs~ 82 (172)
T KOG0870|consen 6 IEDLNLPNAIITRLVKEVLPESNVSISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALD---EIEFSS 82 (172)
T ss_pred HHHhhccHHHHHHHHHHhCccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHH---HhchHH
Confidence 45678999999999995 4666 7899999999999999999999999999999999999999999 775 677776
Q ss_pred cccCCcccHHHHHHHHHHh
Q 028837 180 DYVPEKIKAEDALAQRELA 198 (203)
Q Consensus 180 DIVP~ki~l~d~l~~rk~~ 198 (203)
..-|.+-.++.|...-+.+
T Consensus 83 f~~plk~~Le~yk~~~k~K 101 (172)
T KOG0870|consen 83 FVNPLKSALEAYKKAVKQK 101 (172)
T ss_pred HhhHHHHHHHHHHHHHHHH
Confidence 6677777777776655544
No 11
>smart00414 H2A Histone 2A.
Probab=98.43 E-value=2.5e-07 Score=72.57 Aligned_cols=75 Identities=17% Similarity=0.310 Sum_probs=69.0
Q ss_pred cCCCCChHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce--EEeeCCcccccc
Q 028837 105 KVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL--VVSEQSKYDFLS 179 (203)
Q Consensus 105 ~~~~LPlARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL--aV~~~~~fdFL~ 179 (203)
..+.||++||.|+||..--...|+..|++.++-+.|.++.++..-|...|...+++.|++.|| +|.++++|..|.
T Consensus 6 agL~fPVgRi~r~Lk~~~~~~Rv~~~A~VyLaAvLEYLtaEILeLagn~a~~~k~~rItp~hi~lAi~nD~EL~~L~ 82 (106)
T smart00414 6 AGLQFPVGRIHRLLRKGTYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLAIRNDEELNKLL 82 (106)
T ss_pred CCccCchHHHHHHHHcCccccccccccHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccchHHHhhhccCCHHHHHHH
Confidence 357999999999999877778999999999999999999999999999999999999999999 999999999443
No 12
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Probab=98.37 E-value=4.4e-07 Score=69.74 Aligned_cols=65 Identities=20% Similarity=0.409 Sum_probs=59.2
Q ss_pred ccccCCCCChHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce
Q 028837 102 EVSKVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL 167 (203)
Q Consensus 102 ~~~~~~~LPlARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL 167 (203)
.......||.+-|.||||.--.- .||.+|...+..|.|.|+..|+..|..+|...+|+||+..||
T Consensus 13 ~~~~~~~Lp~apv~Ri~r~~~~~-Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI 77 (91)
T COG2036 13 QRSTDLLLPKAPVRRILRKAGAE-RVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDI 77 (91)
T ss_pred hhhhhhhcCchHHHHHHHHHhHH-HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHH
Confidence 45567889999999999964322 999999999999999999999999999999999999999999
No 13
>PLN00154 histone H2A; Provisional
Probab=98.35 E-value=4.8e-07 Score=74.11 Aligned_cols=76 Identities=20% Similarity=0.257 Sum_probs=69.9
Q ss_pred cCCCCChHHHHHHHhcCC-CccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce--EEeeCCccccccc
Q 028837 105 KVCNFPMGRIKRIFKTQS-SDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL--VVSEQSKYDFLSD 180 (203)
Q Consensus 105 ~~~~LPlARVKrIMK~Dp-Dv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL--aV~~~~~fdFL~D 180 (203)
..+.||++||.++||..- -...|+..|++.++-.+|.+...+..-|...|...+++.|++.|| +|.++++|++|..
T Consensus 35 AgL~FPVgRi~r~Lk~g~~~~~RVga~ApVYLAAVLEYLtAEVLELAGNaA~d~kk~RItPrHi~lAIrnDeEL~~Ll~ 113 (136)
T PLN00154 35 AGLQFPVGRIHRQLKQRVSAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIK 113 (136)
T ss_pred cCccCchHHHHHHHHhhhhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhCCceecHHHhhhhccCcHHHHHHhc
Confidence 468999999999999875 456999999999999999999999999999999999999999999 9999999996654
No 14
>PTZ00017 histone H2A; Provisional
Probab=98.34 E-value=4e-07 Score=74.39 Aligned_cols=75 Identities=17% Similarity=0.283 Sum_probs=69.9
Q ss_pred cCCCCChHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce--EEeeCCcccccc
Q 028837 105 KVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL--VVSEQSKYDFLS 179 (203)
Q Consensus 105 ~~~~LPlARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL--aV~~~~~fdFL~ 179 (203)
..+.||++||.|+|+..--...|+..|++.++-++|.++.++..-|...|...+++.|++.|| +|.++++|+.|.
T Consensus 24 agL~FPVgRi~R~Lk~g~~a~RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk~RItPrHi~lAI~nDeEL~~Ll 100 (134)
T PTZ00017 24 AGLQFPVGRVHRYLKKGRYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKRITPRHIQLAIRNDEELNKLL 100 (134)
T ss_pred CCcccchHHHHHHHhccchhccccccchhhhHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHhhccCcHHHHHHH
Confidence 478999999999999776667999999999999999999999999999999999999999999 999999999765
No 15
>KOG1756 consensus Histone 2A [Chromatin structure and dynamics]
Probab=98.21 E-value=7.4e-07 Score=72.41 Aligned_cols=78 Identities=17% Similarity=0.280 Sum_probs=71.9
Q ss_pred cccCCCCChHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce--EEeeCCccccccc
Q 028837 103 VSKVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL--VVSEQSKYDFLSD 180 (203)
Q Consensus 103 ~~~~~~LPlARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL--aV~~~~~fdFL~D 180 (203)
.-..+.||++||.|+|+...-...|+..|+++++-..|.....++.-|-..|..+++..|.+.|| +|.+++++.||.+
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 34568999999999999977788999999999999999999999999999999999999999999 9999999999976
No 16
>PLN00153 histone H2A; Provisional
Probab=98.11 E-value=2.5e-06 Score=69.33 Aligned_cols=75 Identities=19% Similarity=0.262 Sum_probs=68.8
Q ss_pred cCCCCChHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce--EEeeCCcccccc
Q 028837 105 KVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL--VVSEQSKYDFLS 179 (203)
Q Consensus 105 ~~~~LPlARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL--aV~~~~~fdFL~ 179 (203)
.-+.||++||.|.|+.---...|+..|++.++-..|.++..+..-|...|...+++.|++.|| +|.++++|..|.
T Consensus 21 agL~FpVgRi~R~Lr~g~~a~Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~nDeEL~~Ll 97 (129)
T PLN00153 21 AGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIVPRHIQLAIRNDEELGKLL 97 (129)
T ss_pred cCcccchHHHHHHHhcCchhhccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccChHHHHhhccCcHHHHHHH
Confidence 468999999999999766667999999999999999999999999999999999999999999 999999999443
No 17
>PLN00157 histone H2A; Provisional
Probab=98.10 E-value=2.8e-06 Score=69.31 Aligned_cols=76 Identities=18% Similarity=0.301 Sum_probs=69.2
Q ss_pred cCCCCChHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce--EEeeCCccc-cccc
Q 028837 105 KVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL--VVSEQSKYD-FLSD 180 (203)
Q Consensus 105 ~~~~LPlARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL--aV~~~~~fd-FL~D 180 (203)
..+.||++||.|.|+.---...|+..|++.++-..|.++.++..-|...|...+++.|++.|| +|.++++|. +|.+
T Consensus 23 agL~FPVgRi~R~Lk~g~~a~RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~nDeEL~~Ll~~ 101 (132)
T PLN00157 23 AGLQFPVGRIARYLKAGKYATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSRIVPRHIQLAVRNDEELSKLLGG 101 (132)
T ss_pred cCcccchHHHHHHHhcCchhhhcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHhhcccCcHHHHHHHcC
Confidence 478999999999999865567899999999999999999999999999999999999999999 999999998 4444
No 18
>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=98.10 E-value=3.7e-06 Score=60.02 Aligned_cols=63 Identities=17% Similarity=0.317 Sum_probs=57.7
Q ss_pred cCCCCChHHHHHHHhcCCCc-cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce
Q 028837 105 KVCNFPMGRIKRIFKTQSSD-IGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL 167 (203)
Q Consensus 105 ~~~~LPlARVKrIMK~DpDv-~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL 167 (203)
.-+.+|+.||.+.+..+-.. ..||.+|+.++..++|.|+..+...|+.+|...+|+||+..||
T Consensus 5 ~~~~~~~~r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~tI~~~DI 68 (75)
T PF00125_consen 5 LIPKFPFSRLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRKTITPRDI 68 (75)
T ss_dssp SSSHHHHHHHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBSEEGHHHH
T ss_pred ccCceEEeeeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCcEecHHHH
Confidence 45678899999988887665 5999999999999999999999999999999999999999999
No 19
>PLN00156 histone H2AX; Provisional
Probab=98.09 E-value=2.9e-06 Score=69.75 Aligned_cols=75 Identities=19% Similarity=0.277 Sum_probs=68.5
Q ss_pred cCCCCChHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce--EEeeCCcccccc
Q 028837 105 KVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL--VVSEQSKYDFLS 179 (203)
Q Consensus 105 ~~~~LPlARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL--aV~~~~~fdFL~ 179 (203)
.-+.||++||.|.|+.----..|+..|++.++-..|..+..+...|...|...+++.|++.|| +|.++++|..|.
T Consensus 26 AgL~FPVgRi~R~Lk~g~ya~RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~RItPrHi~lAIrnDeEL~~Ll 102 (139)
T PLN00156 26 AGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRNDEELSKLL 102 (139)
T ss_pred cCcccchHHHHHHHhcCChhhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHhhccCcHHHHHHH
Confidence 368899999999998765567999999999999999999999999999999999999999999 999999999443
No 20
>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=97.97 E-value=1.6e-05 Score=60.41 Aligned_cols=59 Identities=17% Similarity=0.238 Sum_probs=56.6
Q ss_pred CCChHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce
Q 028837 108 NFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL 167 (203)
Q Consensus 108 ~LPlARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL 167 (203)
.||.+-|+||.+... +..||.++...+..+++.|+..++.+|..+|...+|+||+..||
T Consensus 13 gi~k~~I~RLarr~G-vkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV 71 (85)
T cd00076 13 GITKPAIRRLARRGG-VKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDV 71 (85)
T ss_pred cCCHHHHHHHHHHcC-cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHH
Confidence 499999999999765 99999999999999999999999999999999999999999999
No 21
>smart00803 TAF TATA box binding protein associated factor. TAFs (TATA box binding protein associated factors) are part of the transcription initiation factor TFIID multimeric protein complex. TFIID is composed of the TATA box binding protein (TBP) and a number of TAFs. The TAFs provide binding sites for many different transcriptional activators and co-activators that modulate transcription initiation by Pol II. TAF proteins adopt a histone-like fold.
Probab=97.96 E-value=2.3e-05 Score=56.37 Aligned_cols=59 Identities=14% Similarity=0.241 Sum_probs=55.9
Q ss_pred CCChHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce
Q 028837 108 NFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL 167 (203)
Q Consensus 108 ~LPlARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL 167 (203)
.||.+-|++|.+.- .+..||.++...++..+|.|+..+++.|..++...+|+||+.+||
T Consensus 2 ~~p~~~i~ria~~~-Gi~ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI 60 (65)
T smart00803 2 WLPKETIKDVAESL-GIGNLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDI 60 (65)
T ss_pred CCCHHHHHHHHHHC-CCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHH
Confidence 58999999999965 677999999999999999999999999999999999999999998
No 22
>PTZ00252 histone H2A; Provisional
Probab=97.94 E-value=1.1e-05 Score=66.06 Aligned_cols=77 Identities=14% Similarity=0.265 Sum_probs=67.7
Q ss_pred ccCCCCChHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHh--cCCCccccCce--EEeeCCccc-cc
Q 028837 104 SKVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAK--DRKKSLAYKHL--VVSEQSKYD-FL 178 (203)
Q Consensus 104 ~~~~~LPlARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~--~kRKTL~y~DL--aV~~~~~fd-FL 178 (203)
-.-+.||++||.|.|+.----..|+..|++.++-..|.+...+...|...|.. .+++.|++.|| +|.++++|. +|
T Consensus 21 rAGL~FPVgRi~R~Lr~g~ya~RIga~ApVYLAAVLEYLtaEVLELAgnaa~d~~~kk~RItPrHi~lAIrNDeEL~~Ll 100 (134)
T PTZ00252 21 KAGLIFPVGRVGSLLRRGQYARRIGASGAVYMAAVLEYLTAELLELSVKAAAQQAKKPKRLTPRTVTLAVRHDDDLGSLL 100 (134)
T ss_pred ccCccCchHHHHHHHHcCCcccccCCccHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccccHHHHHhhccChHHHHHHH
Confidence 34689999999999997666679999999999999999999999999988865 57789999999 999999998 66
Q ss_pred cc
Q 028837 179 SD 180 (203)
Q Consensus 179 ~D 180 (203)
.+
T Consensus 101 ~~ 102 (134)
T PTZ00252 101 KN 102 (134)
T ss_pred cC
Confidence 55
No 23
>PLN00035 histone H4; Provisional
Probab=97.85 E-value=3e-05 Score=60.92 Aligned_cols=69 Identities=19% Similarity=0.257 Sum_probs=61.0
Q ss_pred CCChHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce--EEe--eCCcccc
Q 028837 108 NFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL--VVS--EQSKYDF 177 (203)
Q Consensus 108 ~LPlARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL--aV~--~~~~fdF 177 (203)
.||.+-|+||.+.- .+..||.++...+..++|.|++.++.+|..+|...+||||+..|| ++. ..+-|-|
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 49999999999965 499999999999999999999999999999999999999999999 443 3355554
No 24
>smart00417 H4 Histone H4.
Probab=97.78 E-value=7.7e-05 Score=55.44 Aligned_cols=59 Identities=19% Similarity=0.230 Sum_probs=56.1
Q ss_pred CCChHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce
Q 028837 108 NFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL 167 (203)
Q Consensus 108 ~LPlARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL 167 (203)
.+|.+-|+||.+.. .+..||.++...+..+.|.|+..++.+|..+|...+||||+..||
T Consensus 13 gI~k~~IrRLaRr~-GvkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV 71 (74)
T smart00417 13 GITKPAIRRLARRG-GVKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDV 71 (74)
T ss_pred CCCHHHHHHHHHHc-CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHh
Confidence 58999999999954 899999999999999999999999999999999999999999998
No 25
>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=97.72 E-value=4.6e-05 Score=63.58 Aligned_cols=76 Identities=24% Similarity=0.465 Sum_probs=66.8
Q ss_pred cCCCCChHHHHHHHhc-CCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce--EEeeCCcccccccc
Q 028837 105 KVCNFPMGRIKRIFKT-QSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL--VVSEQSKYDFLSDY 181 (203)
Q Consensus 105 ~~~~LPlARVKrIMK~-DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL--aV~~~~~fdFL~DI 181 (203)
..+.||-+-|-+|++. -|-...|+.||.-+|--||-.||..|+++|..+|....+|||.|.|| +.. .|.|= ++
T Consensus 9 de~sLPkAtv~KmIke~lP~d~rvakeareliincCvEFI~liSsEAneic~~e~KKTIa~EHV~KALe---~LgF~-eY 84 (156)
T KOG0871|consen 9 DELSLPKATVNKMIKEMLPKDVRVAKEARELIINCCVEFINLISSEANEICNKEAKKTIAPEHVIKALE---NLGFG-EY 84 (156)
T ss_pred ccccCcHHHHHHHHHHhCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcccCCHHHHHHHHH---HcchH-HH
Confidence 3578999999999995 57678899999999999999999999999999999999999999999 776 56665 55
Q ss_pred cCC
Q 028837 182 VPE 184 (203)
Q Consensus 182 VP~ 184 (203)
|+.
T Consensus 85 iee 87 (156)
T KOG0871|consen 85 IEE 87 (156)
T ss_pred HHH
Confidence 554
No 26
>PTZ00015 histone H4; Provisional
Probab=97.65 E-value=0.0001 Score=57.86 Aligned_cols=60 Identities=20% Similarity=0.273 Sum_probs=56.9
Q ss_pred CCCChHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce
Q 028837 107 CNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL 167 (203)
Q Consensus 107 ~~LPlARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL 167 (203)
..+|.+-|+||.+.. .+..||.++...+..+.|.|+..++.+|..+|...+|+||+..||
T Consensus 29 ~gI~k~~IrRLarr~-GvkRIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt~~DV 88 (102)
T PTZ00015 29 RGITKGAIRRLARRG-GVKRISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVTAMDV 88 (102)
T ss_pred cCCCHHHHHHHHHHc-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHH
Confidence 469999999999964 799999999999999999999999999999999999999999999
No 27
>cd07981 TAF12 TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of the seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs function such as serving as activator-bind
Probab=97.52 E-value=0.00016 Score=52.54 Aligned_cols=63 Identities=14% Similarity=0.297 Sum_probs=53.8
Q ss_pred CChHHHHHHHhc-CCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce--EEeeC
Q 028837 109 FPMGRIKRIFKT-QSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL--VVSEQ 172 (203)
Q Consensus 109 LPlARVKrIMK~-DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL--aV~~~ 172 (203)
++-..+..+|+. ||. ..++.+|..++...+|.|+..++..|..+|...+|+||...|| ++...
T Consensus 2 ~~k~~l~~lv~~id~~-~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~r~ 67 (72)
T cd07981 2 LTKRKLQELLKEIDPR-EQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSDTLEVKDVQLHLERN 67 (72)
T ss_pred CcHHHHHHHHHhhCCC-CCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHh
Confidence 344566677774 664 8899999999999999999999999999999999999999999 65543
No 28
>KOG1658 consensus DNA polymerase epsilon, subunit C [Replication, recombination and repair]
Probab=97.31 E-value=0.00014 Score=61.04 Aligned_cols=74 Identities=19% Similarity=0.266 Sum_probs=58.1
Q ss_pred cCCCCChHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce--EEeeCCccccccccc
Q 028837 105 KVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL--VVSEQSKYDFLSDYV 182 (203)
Q Consensus 105 ~~~~LPlARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL--aV~~~~~fdFL~DIV 182 (203)
....||++.|++|-|.||.++..+.+|...++.|+|+|++-|+.-+. .+--.|...-| +|...+.|.||.|-+
T Consensus 8 ~~p~~p~ekvkkiak~dPey~~te~~a~~etafatE~fvq~lv~~p~-----a~l~rLpL~rik~vvkl~pdl~l~~dea 82 (162)
T KOG1658|consen 8 CSPKLPMEKVKKIAKNDPEYMDTEDDAFVETAFATEQFVQVLVHLPQ-----ASLSRLPLARIKQVVKLDPDLTLLNDEA 82 (162)
T ss_pred hCccccHHHHHHhhcCCchhhhcccchHHHHHHHHHHHHhhhhhhhh-----hhhhhccHHHHHhhccCCcchhhhhhHH
Confidence 45789999999999999999999999999999999999999999322 11233444455 777777777776644
Q ss_pred C
Q 028837 183 P 183 (203)
Q Consensus 183 P 183 (203)
-
T Consensus 83 ~ 83 (162)
T KOG1658|consen 83 S 83 (162)
T ss_pred H
Confidence 3
No 29
>smart00428 H3 Histone H3.
Probab=97.23 E-value=0.00098 Score=52.52 Aligned_cols=68 Identities=15% Similarity=0.297 Sum_probs=57.9
Q ss_pred ccccccCCCCChHH-HHHHHhcCCC--ccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce
Q 028837 100 DDEVSKVCNFPMGR-IKRIFKTQSS--DIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL 167 (203)
Q Consensus 100 ~~~~~~~~~LPlAR-VKrIMK~DpD--v~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL 167 (203)
.+.+..-..+|.+| |+.|++.-.. .-.++.+|+.++.-|+|.|+-.|...|+.+|...+|.||...||
T Consensus 24 kst~lLI~k~pF~RLVREI~~~~~~~~~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~~kDi 94 (105)
T smart00428 24 KSTDLLIRKAPFQRLVREIAQKFTTGVDLRFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIMPKDI 94 (105)
T ss_pred cCcccccccccHHHHHHHHHHHcCCCCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCcHhhH
Confidence 34566678899988 4667765322 45999999999999999999999999999999999999999998
No 30
>COG5150 Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=96.71 E-value=0.0012 Score=54.38 Aligned_cols=65 Identities=23% Similarity=0.460 Sum_probs=58.9
Q ss_pred CCCCChHHHHHHHhc-CCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce--EEe
Q 028837 106 VCNFPMGRIKRIFKT-QSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL--VVS 170 (203)
Q Consensus 106 ~~~LPlARVKrIMK~-DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL--aV~ 170 (203)
...||-+-|.+++-. -|-...+++||..++--||=.||-.|+..|...|....+|||.|.|| ++.
T Consensus 9 e~sLPKATVqKMvS~iLp~dl~ftKearei~in~cieFi~~lsseAne~ce~EaKKTIa~EHviKALe 76 (148)
T COG5150 9 ENSLPKATVQKMVSSILPKDLVFTKEAREIFINACIEFINMLSSEANEACEEEAKKTIAYEHVIKALE 76 (148)
T ss_pred cccCcHHHHHHHHHHhccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHH
Confidence 457999999998875 46667899999999999999999999999999999999999999999 776
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=96.69 E-value=0.0042 Score=47.05 Aligned_cols=62 Identities=21% Similarity=0.359 Sum_probs=54.5
Q ss_pred cCCCCChHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCccccCce
Q 028837 105 KVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDR---KKSLAYKHL 167 (203)
Q Consensus 105 ~~~~LPlARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~k---RKTL~y~DL 167 (203)
....||-+.|||||...-+ ..++...+.+|+..+-+||..|+..|..+....+ +.-|++.||
T Consensus 13 Rra~f~k~~iKr~~~~~~~-~~v~~~v~i~v~glaKvFVGeivE~A~~V~~~~~~~~~~Pl~P~Hi 77 (85)
T cd08048 13 RRSSFPKAAIKRLIQSVTG-QSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGEANTGPLQPRHL 77 (85)
T ss_pred HHhhccHHHHHHHHHHHcC-CCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCCcHHH
Confidence 3456999999999997766 8899999999999999999999999999977654 478888888
No 32
>PLN00121 histone H3; Provisional
Probab=96.51 E-value=0.0066 Score=49.96 Aligned_cols=68 Identities=18% Similarity=0.381 Sum_probs=58.1
Q ss_pred ccccccCCCCChHHH-HHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce
Q 028837 100 DDEVSKVCNFPMGRI-KRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL 167 (203)
Q Consensus 100 ~~~~~~~~~LPlARV-KrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL 167 (203)
.+.+..-..+|..|+ +.|+..-..-..+..+|+.++.-|+|.|+-.|-.+++.+|...+|-||...||
T Consensus 57 kst~lLI~k~pF~RLVREI~~~~~~~~Rf~~~Al~ALQeaaE~yLv~lfed~~lca~HakRVTl~~kD~ 125 (136)
T PLN00121 57 KSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDI 125 (136)
T ss_pred cccccccccccHHHHHHHHHHHhCccceeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcceecchhhH
Confidence 455677788999885 55666533334999999999999999999999999999999999999999998
No 33
>PTZ00018 histone H3; Provisional
Probab=96.37 E-value=0.0085 Score=49.31 Aligned_cols=67 Identities=16% Similarity=0.385 Sum_probs=57.7
Q ss_pred ccccccCCCCChHHH-HHHHhc-CCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce
Q 028837 100 DDEVSKVCNFPMGRI-KRIFKT-QSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL 167 (203)
Q Consensus 100 ~~~~~~~~~LPlARV-KrIMK~-DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL 167 (203)
.+.+..-..+|..|+ +.|+.. .++ ..+..+|+.++.-|+|.|+-.|-.+++.+|...+|-||...||
T Consensus 57 kst~lLI~k~pF~RLVREI~~~~~~~-~rf~~~al~aLQeaaE~yLv~lfed~~lca~HakRVTl~~kD~ 125 (136)
T PTZ00018 57 KSTELLIRKLPFQRLVREIAQDFKTD-LRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDI 125 (136)
T ss_pred ccchhccccccHHHHHHHHHHHcCCc-ceeeHHHHHHHHHHHHHHHHHHhhhhHHHHHhhcceecchhhH
Confidence 455677788999885 556654 344 4999999999999999999999999999999999999999998
No 34
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T.
Probab=96.27 E-value=0.0052 Score=57.83 Aligned_cols=62 Identities=21% Similarity=0.332 Sum_probs=45.6
Q ss_pred cCCCCChHHHHHHHhcC-----CCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCc
Q 028837 105 KVCNFPMGRIKRIFKTQ-----SSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKH 166 (203)
Q Consensus 105 ~~~~LPlARVKrIMK~D-----pDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~D 166 (203)
....||.+-||++...- -.-+.|+++|+-+|.+|++.|.++|+.+=-.+|...+||||...|
T Consensus 348 ~~P~lP~~~vK~la~~~ak~s~~sK~kiskdal~aleqasdwfFeQl~dDL~aYA~HAgRKTIdesD 414 (414)
T PF15511_consen 348 PYPSLPPGVVKKLAQHFAKSSGGSKMKISKDALEALEQASDWFFEQLGDDLEAYAKHAGRKTIDESD 414 (414)
T ss_dssp ----S-HHHHHHHHHHHH-------S-B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHH
T ss_pred CCCCCCccHHHHHHHHHHHhhcccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCCCC
Confidence 45679999999987632 245789999999999999999999999999999999999998654
No 35
>PLN00160 histone H3; Provisional
Probab=95.96 E-value=0.017 Score=45.02 Aligned_cols=67 Identities=16% Similarity=0.325 Sum_probs=56.7
Q ss_pred cccccCCCCChHHH-HHHHhc-CCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce
Q 028837 101 DEVSKVCNFPMGRI-KRIFKT-QSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL 167 (203)
Q Consensus 101 ~~~~~~~~LPlARV-KrIMK~-DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL 167 (203)
+.+..-..+|..|+ +.|+.. ..+.-.+..+|+.++.-|+|.|+-.|-..++.+|...+|-||...||
T Consensus 17 st~lLI~k~pF~RLVREI~~~~~~~~~Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRVTl~~kD~ 85 (97)
T PLN00160 17 STDLLIRRLPFARLVREIQMEMSREAYRWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRVTIMPKDM 85 (97)
T ss_pred chhhhhccccHHHHHHHHHHHcCCCCcEeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcccccchhhH
Confidence 34555678899885 556553 34556999999999999999999999999999999999999999998
No 36
>PLN00161 histone H3; Provisional
Probab=95.91 E-value=0.024 Score=46.74 Aligned_cols=68 Identities=21% Similarity=0.385 Sum_probs=58.4
Q ss_pred ccccccCCCCChHHH-HHHHhc-CCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce
Q 028837 100 DDEVSKVCNFPMGRI-KRIFKT-QSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL 167 (203)
Q Consensus 100 ~~~~~~~~~LPlARV-KrIMK~-DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL 167 (203)
.+.+..-..+|.+|+ +.|+.. .+..-.+..+|+.++.-|+|.|+-.|-.+|+-+|...+|-||...||
T Consensus 50 kst~lLIpklPF~RLVREI~~~~~~~~~Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHAkRVTlm~kDm 119 (135)
T PLN00161 50 KSTELLIRKLPFARLVREISNEMLREPFRWTAEALLALQEATEDFLVHLFEDCNLCAIHAKRVTIMPKDM 119 (135)
T ss_pred cccccccccccHHHHHHHHHHhcCCCCcEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchhhH
Confidence 445667788999885 666654 34456899999999999999999999999999999999999999999
No 37
>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=95.68 E-value=0.013 Score=46.48 Aligned_cols=66 Identities=12% Similarity=0.168 Sum_probs=57.4
Q ss_pred HHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce--EEeeCCccccc
Q 028837 112 GRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL--VVSEQSKYDFL 178 (203)
Q Consensus 112 ARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL--aV~~~~~fdFL 178 (203)
.-|.+|++.- .+..++..++..+..-++.++..++.+|..+|...+|+||+.+|| +|...-.|.|-
T Consensus 5 ~~v~~iLk~~-Gv~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~r~~~~f~ 72 (117)
T cd07979 5 RVIAAILKSM-GITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQSRVDYSFT 72 (117)
T ss_pred HHHHHHHHHC-CCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhccCCC
Confidence 3577788754 777999999999999999999999999999999999999999999 77755556665
No 38
>KOG1757 consensus Histone 2A [Chromatin structure and dynamics]
Probab=95.62 E-value=0.013 Score=47.46 Aligned_cols=71 Identities=23% Similarity=0.327 Sum_probs=53.3
Q ss_pred cCCCCChHHHHHHHhcC-CCccchhhHHHHHHHHHHHHHHHHHHHHHHHHH----HhcCCCccccCce--EEeeCCcccc
Q 028837 105 KVCNFPMGRIKRIFKTQ-SSDIGITGEAVFLVNKATDKFLEQFCEDAYECC----AKDRKKSLAYKHL--VVSEQSKYDF 177 (203)
Q Consensus 105 ~~~~LPlARVKrIMK~D-pDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A----~~~kRKTL~y~DL--aV~~~~~fdF 177 (203)
.-+.||++||.|.+|.- -..+.|..-|.+..+-..| ||+.+.++.| ..-+-|.|++.|+ +|..++++|-
T Consensus 27 aGlqFpVgRihr~LK~r~t~h~rVGataavy~aaile----YLTaEVLeLAgNasKdLKvKRitprHlqLAiRGDeELDt 102 (131)
T KOG1757|consen 27 AGLQFPVGRIHRHLKTRTTSHGRVGATAAVYSAAILE----YLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDT 102 (131)
T ss_pred cccccchHHHHHHHHHhcccccccchHHHHHHHHHHH----HHHHHHHHHcccccccceeeeccchhheeeecCcHHHHH
Confidence 45889999999999974 5567777777666665555 5555555544 3335688999999 9999999998
Q ss_pred cc
Q 028837 178 LS 179 (203)
Q Consensus 178 L~ 179 (203)
|.
T Consensus 103 LI 104 (131)
T KOG1757|consen 103 LI 104 (131)
T ss_pred HH
Confidence 85
No 39
>PF09415 CENP-X: CENP-S associating Centromere protein X; InterPro: IPR018552 Centromere protein X (CENP-X) is a component of the CENP-S complex. The CENP-S complex is composed of at least of CENP-S and CENP-X and is essential for the stable assembly of the outer kinetchore []. CENP-X is also a DNA-binding component of the Fanconi anemia (FA) core complex involved in DNA damage repair and genome maintenance. The FA complex is composed of CENPS, FANCA, FANCB, FANCC, FANCE, FANCF, FANCG, FANCL/PHF9, FANCM, FAAP24 and CENPX. Interacts with CENPS, FANCM and FAAP24 [, ].; PDB: 4DRB_L 4DRA_H 3V9R_D.
Probab=95.27 E-value=0.011 Score=43.56 Aligned_cols=58 Identities=21% Similarity=0.293 Sum_probs=47.7
Q ss_pred ChHHHHHHHhc--CCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCc-cccCce
Q 028837 110 PMGRIKRIFKT--QSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKS-LAYKHL 167 (203)
Q Consensus 110 PlARVKrIMK~--DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKT-L~y~DL 167 (203)
|..-|.||++. ..+-.+|+.+|+.++++-.++||..-+.+|+..+...+... |..+||
T Consensus 1 p~~li~rll~~~f~~~~tkIs~dal~l~~eyl~iFV~EAv~Ra~~~a~~e~~~~~le~e~L 61 (72)
T PF09415_consen 1 PPELIARLLHEHFKDDKTKISKDALKLSAEYLRIFVREAVARAAEQAEAEGDEGFLEVEHL 61 (72)
T ss_dssp -CHHHHHHHCTTSSSTT-EE-CCCHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSEE-HHHH
T ss_pred ChHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCHHHH
Confidence 56678899995 35788999999999999999999999999999999888877 888888
No 40
>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=95.24 E-value=0.027 Score=42.97 Aligned_cols=70 Identities=17% Similarity=0.307 Sum_probs=34.5
Q ss_pred HHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce--EEeeC-CcccccccccC
Q 028837 114 IKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL--VVSEQ-SKYDFLSDYVP 183 (203)
Q Consensus 114 VKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL--aV~~~-~~fdFL~DIVP 183 (203)
|+.||-.-.|+..-..|++.+|-..+-.||..|+..|..+|...+++.|+.+|| ++.++ ..|.-|..++-
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 678999999999999999999999999999999999999999999999999999 55533 34444444443
No 41
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=94.70 E-value=0.089 Score=38.40 Aligned_cols=53 Identities=6% Similarity=0.106 Sum_probs=46.8
Q ss_pred HHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce
Q 028837 114 IKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL 167 (203)
Q Consensus 114 VKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL 167 (203)
|-+|++ .-++..++..|+-.++..++.|+..|+..+..+|...+|.+.+..||
T Consensus 12 Vaqil~-~~Gf~~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~~~Dv 64 (77)
T smart00576 12 VAQILE-SAGFDSFQESALETLTDILQSYIQELGRTAHSYAELAGRTEPNLGDV 64 (77)
T ss_pred HHHHHH-HcCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHH
Confidence 345555 33677899999999999999999999999999999999999999998
No 42
>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=93.96 E-value=0.11 Score=37.90 Aligned_cols=59 Identities=14% Similarity=0.213 Sum_probs=45.0
Q ss_pred CCChHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce
Q 028837 108 NFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL 167 (203)
Q Consensus 108 ~LPlARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL 167 (203)
.||..-||-|-.+ -.+..++.++..+++.=+|..|.++.+.|...+...+|+.|+.+||
T Consensus 3 ~~~~esvk~iAes-~Gi~~l~de~a~~La~dveyrlreiiq~a~kfm~hskR~~Lt~~Di 61 (66)
T PF02969_consen 3 VFSQESVKDIAES-LGISNLSDEAAKALAEDVEYRLREIIQEALKFMRHSKRTKLTTDDI 61 (66)
T ss_dssp ---HHHHHHHHHH-TT---B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHH
T ss_pred cCCHHHHHHHHHH-cCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHH
Confidence 4677777777654 3567799999999999999999999999999999999999999998
No 43
>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=93.78 E-value=0.13 Score=47.18 Aligned_cols=56 Identities=14% Similarity=0.191 Sum_probs=49.7
Q ss_pred hHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce
Q 028837 111 MGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL 167 (203)
Q Consensus 111 lARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL 167 (203)
..-|+-|.++ -++..++.+|...++.-+|.++..+++.|...+...+|++|+.+||
T Consensus 2 ~~~i~~ia~~-~Gi~~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di 57 (343)
T cd08050 2 QESIKLIAES-LGIDSLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDV 57 (343)
T ss_pred hhHHHHHHHH-cCCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHH
Confidence 3446666664 3678999999999999999999999999999999999999999999
No 44
>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=93.77 E-value=0.2 Score=36.49 Aligned_cols=55 Identities=13% Similarity=0.243 Sum_probs=43.2
Q ss_pred HHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce
Q 028837 113 RIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL 167 (203)
Q Consensus 113 RVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL 167 (203)
++..+|+.-..-..+..++--++...++-||...+..|...|..++..||...||
T Consensus 4 ~l~~Lv~~iDp~~~ld~~vee~Ll~laddFv~~v~~~ac~lAKhR~s~tle~~Dv 58 (68)
T PF03847_consen 4 KLQELVKQIDPNEKLDPDVEELLLELADDFVDDVVSFACRLAKHRKSSTLEVKDV 58 (68)
T ss_dssp HHHHHHHCC-SS----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHH
T ss_pred HHHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHH
Confidence 5667777655566789999999999999999999999999999999999999998
No 45
>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=93.20 E-value=0.14 Score=39.31 Aligned_cols=64 Identities=17% Similarity=0.249 Sum_probs=44.9
Q ss_pred ccCCCCChHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCccccCce
Q 028837 104 SKVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDR-KKSLAYKHL 167 (203)
Q Consensus 104 ~~~~~LPlARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~k-RKTL~y~DL 167 (203)
.+...||-+-||+||..--....|+...+++|+-.+-+||-+|...|..+..... ...|++.||
T Consensus 19 fRRs~~~k~~ikkli~~~~~~qsv~~~v~i~v~g~aKvFVGEiVE~A~~Vq~~~~~~~pl~P~hl 83 (90)
T PF04719_consen 19 FRRSSFNKAAIKKLINQVLGNQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGETGPLQPDHL 83 (90)
T ss_dssp HHH----HHHHHHHHHHHHS-S---HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--SS--HHHH
T ss_pred HHHccCCHHHHHHHHHHHcCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHH
Confidence 3456799999999999865557899999999999999999999999999876543 347777776
No 46
>KOG1142 consensus Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=92.27 E-value=0.44 Score=43.05 Aligned_cols=75 Identities=4% Similarity=0.115 Sum_probs=62.9
Q ss_pred CCCChHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce--EEeeCCcccccccc
Q 028837 107 CNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL--VVSEQSKYDFLSDY 181 (203)
Q Consensus 107 ~~LPlARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL--aV~~~~~fdFL~DI 181 (203)
..|--.+|..+|+.-.....+..|+-.+|..-|+-||..++..|...|..++..+|...|| .++.+-.+.|=.+-
T Consensus 153 ~il~k~kl~dLvqqId~~~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtlEvrDIqLhLEr~~Nm~iPgf~ 229 (258)
T KOG1142|consen 153 PILSKRKLDDLVQQIDGTTKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTVEVRDIQLHLERNFNMEIPGFS 229 (258)
T ss_pred ccccccchhHHHHhhcCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccchhheeeeeeccccccCCCcc
Confidence 3344456777777666677899999999999999999999999999999999999999999 88888888775443
No 47
>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=92.12 E-value=0.27 Score=37.70 Aligned_cols=60 Identities=15% Similarity=0.266 Sum_probs=51.4
Q ss_pred HHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce--EEeeC
Q 028837 112 GRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL--VVSEQ 172 (203)
Q Consensus 112 ARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL--aV~~~ 172 (203)
.-|+.+|-.-.|+..-..|++-+|-..+-.||..|+..|...|+ .++..++.+|| ++.++
T Consensus 6 ~ei~~mmy~~GD~~~P~~eTv~llE~iv~~~i~~l~~~a~~~A~-~r~~k~~~eD~~FliR~D 67 (92)
T cd07978 6 KEIRQMMYGFGDVQNPLPETVDLLEDIVVEYIIELCHKAAEVAQ-RRRGKVKVEDLIFLLRKD 67 (92)
T ss_pred HHHHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-cCCCCCCHHHHHHHHhcC
Confidence 34889999999999999999999999999999999999999998 44444599999 55443
No 48
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C.
Probab=91.39 E-value=0.22 Score=37.08 Aligned_cols=54 Identities=9% Similarity=0.231 Sum_probs=43.8
Q ss_pred HHHHHhcC--CCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce
Q 028837 114 IKRIFKTQ--SSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL 167 (203)
Q Consensus 114 VKrIMK~D--pDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL 167 (203)
|-+|...- +.-..+|+..+.+|+-.+=.++..++.+-...|+..+|+||+.+||
T Consensus 11 v~ki~ee~~~~~~~~~s~~~i~al~ELv~~q~~~~a~DLe~FAkHA~R~tI~~dDV 66 (76)
T PF15630_consen 11 VGKIVEEEAKEKGVEVSPQFIAALTELVYKQLENLAKDLEAFAKHAGRSTINMDDV 66 (76)
T ss_dssp HHHHHHHCCCCTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHH
T ss_pred HHHHHHHHHhccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHH
Confidence 45666643 4556799999999999999999999999999999999999999999
No 49
>KOG1745 consensus Histones H3 and H4 [Chromatin structure and dynamics]
Probab=90.93 E-value=0.38 Score=39.83 Aligned_cols=67 Identities=18% Similarity=0.356 Sum_probs=59.9
Q ss_pred cccccCCCCChHHHHH-HHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce
Q 028837 101 DEVSKVCNFPMGRIKR-IFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL 167 (203)
Q Consensus 101 ~~~~~~~~LPlARVKr-IMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL 167 (203)
+.+..-..+|..|.-+ |++.--....+-+.|+.++.-|+|.|+-.|-..++-+|...+|-||-..||
T Consensus 59 stdLlI~K~PFqRlvrei~q~f~~dLrfqs~Ai~ALQeA~EayLv~LfEdtnlcAihAkRVTimpkdi 126 (137)
T KOG1745|consen 59 STDLLIRKLPFQRLVREIAQDFKTDLRFQSSAIAALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDI 126 (137)
T ss_pred hhHHHhhcCcHHHHhHHHHhcccccceehHHHHHHHHHHHHHHHHHhccccchhhhccceeEecccce
Confidence 4455556899999777 999877788899999999999999999999999999999999999999999
No 50
>smart00427 H2B Histone H2B.
Probab=90.53 E-value=0.47 Score=36.64 Aligned_cols=55 Identities=20% Similarity=0.433 Sum_probs=45.7
Q ss_pred HHHHHh-cCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce--EE
Q 028837 114 IKRIFK-TQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL--VV 169 (203)
Q Consensus 114 VKrIMK-~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL--aV 169 (203)
|.|++| ..||. .||..|.-+|.--.--+.+.++.+|...+..++|.||+..+| +|
T Consensus 7 i~kvLKqVhpd~-giS~kam~imnSfvnDiferIa~EAs~L~~~nkr~TltsreIqtAv 64 (89)
T smart00427 7 IYKVLKQVHPDT-GISSKAMSIMNSFVNDIFERIAAEASKLARYNKKSTLSSREIQTAV 64 (89)
T ss_pred HHHHHHHhCCCc-cccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHH
Confidence 667777 46888 588888777776667777889999999999999999999999 66
No 51
>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=90.50 E-value=0.42 Score=42.11 Aligned_cols=45 Identities=22% Similarity=0.254 Sum_probs=32.8
Q ss_pred HHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 028837 112 GRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKD 157 (203)
Q Consensus 112 ARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~ 157 (203)
.+|.+|++... +..|..|.+.+|+-|||..|..|...+...|..+
T Consensus 51 ~~i~~i~~~~g-~~~~~~d~l~llS~A~e~rLr~lie~~~~~s~hR 95 (264)
T PF05236_consen 51 KRIQKIAKKHG-LKSVDEDVLELLSLATEERLRNLIEKAIVLSRHR 95 (264)
T ss_dssp HHHHHHHHCTT---EE-TCHHHHHHHHHHHHHHHHHHHHH------
T ss_pred HHHHHHHHHcC-CcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 67888887666 8889999999999999999999999999988654
No 52
>PLN00155 histone H2A; Provisional
Probab=87.05 E-value=0.62 Score=33.48 Aligned_cols=37 Identities=24% Similarity=0.298 Sum_probs=31.4
Q ss_pred cCCCCChHHHHHHHhcCCCccchhhHHHHHHHHHHHH
Q 028837 105 KVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDK 141 (203)
Q Consensus 105 ~~~~LPlARVKrIMK~DpDv~~IS~EA~~lIaKAtEL 141 (203)
.-+.||++||.+.++.----..|+..|++.++-..|.
T Consensus 21 AgL~FPVgri~r~Lr~g~~a~Rvga~apVYlAAVLEY 57 (58)
T PLN00155 21 AGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEY 57 (58)
T ss_pred cccccchHHHHHHHhcCChhhcccCCcHHHHHHHHHh
Confidence 4689999999999998766679999999988877764
No 53
>KOG3219 consensus Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=86.44 E-value=0.42 Score=41.65 Aligned_cols=64 Identities=16% Similarity=0.310 Sum_probs=54.4
Q ss_pred cCCCCChHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCccccCce--EE
Q 028837 105 KVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDR-KKSLAYKHL--VV 169 (203)
Q Consensus 105 ~~~~LPlARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~k-RKTL~y~DL--aV 169 (203)
+...||-+.||++|..--.-. |+.-+.++|+=-+.+||-.|+..|..++...+ ..-|++.|| |+
T Consensus 109 Rrs~f~Ka~iKkL~~~itg~~-v~~nv~Ia~~GiaKvFVGEvVEeAl~V~~~~~e~~PLqP~HIREA~ 175 (195)
T KOG3219|consen 109 RRSAFPKAQIKKLMSSITGQS-VSENVAIAMAGIAKVFVGEVVEEALDVREEWGESGPLQPKHIREAY 175 (195)
T ss_pred HHhcCCHHHHHHHHHHHhCCc-cCcceeeeecchhhHhHHHHHHHHHHHHHHhccCCCCCcHHHHHHH
Confidence 468999999999999754444 89999999999999999999999999976544 578999999 55
No 54
>PF15510 CENP-W: Centromere kinetochore component W
Probab=85.89 E-value=0.85 Score=35.84 Aligned_cols=61 Identities=21% Similarity=0.373 Sum_probs=48.8
Q ss_pred CCCChHHHHHHHhcCCCccchhhHHHHH--------------HHHHHHHHHHHHHHHHHHHHHhcCCCccccCce
Q 028837 107 CNFPMGRIKRIFKTQSSDIGITGEAVFL--------------VNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL 167 (203)
Q Consensus 107 ~~LPlARVKrIMK~DpDv~~IS~EA~~l--------------IaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL 167 (203)
-.-|-+-.+++||-....-.+...+-.+ |---|=|||..|+.+|-.+|=.++..+|..+||
T Consensus 15 rkaPrgfLkrv~Kr~KphlRl~~~~Dllv~~~~f~~~~~~~~vhLncLLFvhrLAEEaRtnA~EnK~~~Ik~~Hv 89 (102)
T PF15510_consen 15 RKAPRGFLKRVFKRQKPHLRLETSGDLLVRFCPFSGWQWGGEVHLNCLLFVHRLAEEARTNACENKCGTIKKEHV 89 (102)
T ss_pred HhCchHHHHHHHHhcCCceeecccccHHHhhcccccccccceeehhHHHHHHHHHHHHHHHHHHHhhccccHHHH
Confidence 3568899999999654444444444444 566788999999999999999999999999999
No 55
>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=84.17 E-value=1.7 Score=30.35 Aligned_cols=47 Identities=19% Similarity=0.230 Sum_probs=33.9
Q ss_pred CChHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028837 109 FPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAK 156 (203)
Q Consensus 109 LPlARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~ 156 (203)
+|=+-+.-+|... .+..-..-..-+|+-|++.||.+++.+|++++..
T Consensus 3 IPD~v~~~yL~~~-G~~~~D~rv~RLvSLaaQKFisdI~~dA~q~~k~ 49 (51)
T PF03540_consen 3 IPDEVTDYYLERS-GFQTSDPRVKRLVSLAAQKFISDIANDAMQYCKI 49 (51)
T ss_pred CCHHHHHHHHHHC-CCCCCCHhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4555566666643 1222344567899999999999999999999864
No 56
>PF07524 Bromo_TP: Bromodomain associated; InterPro: IPR006565 This bromodomain is found in eukaryotic transcription factors and PHD domain containing proteins (IPR001965 from INTERPRO). The tandem PHD finger-bromodomain is found in many chromatin-associated proteins. It is involved in gene silencing by the human co-repressor KRAB-associated protein 1 (KAP1). The tandem PHD finger-bromodomain of KAP1 has a distinct structure that joins the two protein modules. The first helix, alpha(Z), of an atypical bromodomain forms the central hydrophobic core that anchors the other three helices of the bromodomain on one side and the zinc binding PHD finger on the other []. The Rap1 GTPase-activating protein, Sipa1, is modulated by the cellular bromodomain protein, Brd4. Brd4 belongs to the BET family and is a multifunctional protein involved in transcription, replication, the signal transduction pathway, and cell cycle progression. All of these functions are linked to its association with acetylated chromatin. It has tandem bromodomains []. The dysregulation of the Brd4-associated pathways may play an important role in breast cancer progression []. Bovine papillomavirus type 1 E2 also binds to chromosomes in a complex with Brd4. Interaction with Brd4 is additionally important for E2-mediated transcriptional regulation [, ].
Probab=83.48 E-value=3.7 Score=29.50 Aligned_cols=47 Identities=6% Similarity=0.100 Sum_probs=43.1
Q ss_pred CCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce
Q 028837 121 QSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL 167 (203)
Q Consensus 121 DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL 167 (203)
.-.+..+++.|+-.++-.+..||+.|++.+..+|...+|....+.||
T Consensus 18 ~~GF~~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt~~~~~Dv 64 (77)
T PF07524_consen 18 HAGFDSASPSALDTLTDILQRYLQELGRTAKRYAEHAGRTEPNLQDV 64 (77)
T ss_pred HcCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHH
Confidence 35677899999999999999999999999999999999998889888
No 57
>PLN00158 histone H2B; Provisional
Probab=83.27 E-value=2 Score=34.68 Aligned_cols=57 Identities=16% Similarity=0.280 Sum_probs=46.6
Q ss_pred HHHHHHHhc-CCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce--EE
Q 028837 112 GRIKRIFKT-QSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL--VV 169 (203)
Q Consensus 112 ARVKrIMK~-DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL--aV 169 (203)
.-|.+++|. .||.+ ||..|.-+|.--..-+.+.|+.+|...+..++|.||+..+| +|
T Consensus 31 ~YI~kVLKQVhPd~g-IS~kaM~ImnSfvnDiferIA~EAs~La~~nkr~TltsrEIqtAv 90 (116)
T PLN00158 31 IYIYKVLKQVHPDTG-ISSKAMSIMNSFINDIFEKIATEAGKLARYNKKPTVTSREIQTAV 90 (116)
T ss_pred HHHHHHHHHhCCCCC-ccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHH
Confidence 347777774 78886 57778777776667777889999999999999999999999 65
No 58
>KOG1744 consensus Histone H2B [Chromatin structure and dynamics]
Probab=82.86 E-value=2.8 Score=34.37 Aligned_cols=58 Identities=10% Similarity=0.190 Sum_probs=41.7
Q ss_pred CCCCChHHHHHHHh-cCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce
Q 028837 106 VCNFPMGRIKRIFK-TQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL 167 (203)
Q Consensus 106 ~~~LPlARVKrIMK-~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL 167 (203)
....++-| ++| .+||++ |+.+|.-++.--.-.|++.++.+|...|...+|.||+-.+|
T Consensus 38 ~~s~yv~k---vlk~Vhpd~g-is~~a~~vmnsf~ndife~iA~ea~rla~y~krstisSrei 96 (127)
T KOG1744|consen 38 SYSEYVYK---VLKQVHPDLG-ISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTISSREI 96 (127)
T ss_pred ceeeehhh---hhhcccCCCC-cCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCcccHHHH
Confidence 34455555 555 578877 55555544444444458899999999999999999999988
No 59
>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=82.59 E-value=4.3 Score=34.74 Aligned_cols=77 Identities=9% Similarity=0.081 Sum_probs=49.8
Q ss_pred cccCCCCChHHHHHHHhc---CCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce-EEeeC---Ccc
Q 028837 103 VSKVCNFPMGRIKRIFKT---QSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL-VVSEQ---SKY 175 (203)
Q Consensus 103 ~~~~~~LPlARVKrIMK~---DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL-aV~~~---~~f 175 (203)
.+....|....|.+.|.. ...+..|+.+++.+|+.|||.+|..|...+...+..+ ....+.|. ++..+ .++
T Consensus 39 ~~~~~fl~~~~l~~~~~~i~~~~g~~~~~~d~~~lis~a~e~rlr~li~k~~~~s~hR--~~~~~~~~r~~~~sdvr~qL 116 (212)
T cd08045 39 QKDPSFLNPSPLAKKIRKIAKKHGLKEVDEDVLDLISLALEERLRNLLEKLIEVSEHR--VDSEKEDERYEITSDVRKQL 116 (212)
T ss_pred cchhhccCHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--hhhcCCCCceeecchHHHHH
Confidence 334455555555444442 2334489999999999999999999999999988653 22224555 33322 355
Q ss_pred cccccc
Q 028837 176 DFLSDY 181 (203)
Q Consensus 176 dFL~DI 181 (203)
.||.+.
T Consensus 117 ~~l~~~ 122 (212)
T cd08045 117 RFLEQL 122 (212)
T ss_pred HHHHHH
Confidence 666544
No 60
>PTZ00463 histone H2B; Provisional
Probab=81.96 E-value=2.9 Score=33.91 Aligned_cols=55 Identities=16% Similarity=0.341 Sum_probs=45.0
Q ss_pred HHHHHhc-CCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce--EE
Q 028837 114 IKRIFKT-QSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL--VV 169 (203)
Q Consensus 114 VKrIMK~-DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL--aV 169 (203)
|.+++|. .||.+ ||..|.-+|.--.--..+.++.+|...+...+|.||+..+| +|
T Consensus 34 I~KVLKqVhPd~g-IS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~TltsrEIQtAv 91 (117)
T PTZ00463 34 IFKVLKQVHPDTG-ISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLSSREIQTAI 91 (117)
T ss_pred HHHHHHhhCCCCC-ccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHH
Confidence 7777774 78887 57777777776666666789999999999999999999999 65
No 61
>PF10979 DUF2786: Protein of unknown function (DUF2786); InterPro: IPR024498 This domain is found in proteins that have no known function.
Probab=69.48 E-value=10 Score=25.30 Aligned_cols=35 Identities=17% Similarity=0.156 Sum_probs=30.1
Q ss_pred hHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHH
Q 028837 111 MGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQ 145 (203)
Q Consensus 111 lARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~ 145 (203)
+.||+++|..-.+.+.-..||-.++.+|-+|..+|
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 57999999988877766679999999999997765
No 62
>KOG3423 consensus Transcription initiation factor TFIID, subunit TAF10 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=68.56 E-value=8.3 Score=33.20 Aligned_cols=53 Identities=17% Similarity=0.125 Sum_probs=39.3
Q ss_pred cCCCCChHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 028837 105 KVCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDR 158 (203)
Q Consensus 105 ~~~~LPlARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~k 158 (203)
....+|=+-+--+|+.. .+.....-..-||+-|+.-||..++..|++++..+.
T Consensus 83 YtP~IPDavt~~yL~~a-Gf~~~D~rv~RLvsLaAQKfvSDIa~DA~Q~~k~r~ 135 (176)
T KOG3423|consen 83 YTPTIPDAVTDHYLKKA-GFQTSDPRVKRLVSLAAQKFVSDIANDALQHSKIRT 135 (176)
T ss_pred CCCCCcHHHHHHHHHhc-CCCcCcHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence 34566666666666643 344455666789999999999999999999987543
No 63
>KOG2549 consensus Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=65.96 E-value=8.8 Score=38.37 Aligned_cols=67 Identities=13% Similarity=0.249 Sum_probs=53.2
Q ss_pred hHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce-----EEeeCCccccc
Q 028837 111 MGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL-----VVSEQSKYDFL 178 (203)
Q Consensus 111 lARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL-----aV~~~~~fdFL 178 (203)
..-|+-+.+ .-.+..++.|+..+++.=.|.=|.+++++|.+.....+|.+|+.+|| .....+-|.|=
T Consensus 14 ~Es~k~vAE-slGi~nl~deaa~~La~dv~yrikEI~Q~aaKfm~hskR~kLtv~DV~~ALr~~nVep~yg~~ 85 (576)
T KOG2549|consen 14 KESVKVVAE-SLGITNLNDEAALLLAEDVEYRIKEIVQDAAKFMVHSKRTKLTVDDVDYALRSLNVEPLYGFG 85 (576)
T ss_pred HHHHHHHHH-HhCccccCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcCcHHHHHHHHhhcccccccCcc
Confidence 334444443 35678899999999999999999999999999999999999999999 33344555554
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=60.32 E-value=12 Score=30.53 Aligned_cols=64 Identities=13% Similarity=0.142 Sum_probs=39.1
Q ss_pred HHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce--EEeeCCcccc
Q 028837 113 RIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL--VVSEQSKYDF 177 (203)
Q Consensus 113 RVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL--aV~~~~~fdF 177 (203)
-|..|++.- .|......++..+---+=.|+..+..+|..+|...+|.+|..+|| +|...-.+.|
T Consensus 17 ~i~~iL~~~-Gv~~yeprVv~qLLEfayRYt~~vL~DA~~ya~hA~~~~i~~~DVrLAi~~r~~~~f 82 (129)
T PF02291_consen 17 VIHLILKSM-GVTEYEPRVVNQLLEFAYRYTSDVLEDAQVYADHAGRSTIDADDVRLAIQSRLDHSF 82 (129)
T ss_dssp HHHHHHHHT-T---B-THHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHHHHT-----
T ss_pred HHHHHHHHc-CCcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHhhhc
Confidence 355555543 555566666655544456778889999999999999999999999 7775444444
No 65
>KOG3467 consensus Histone H4 [Chromatin structure and dynamics]
Probab=57.83 E-value=15 Score=28.78 Aligned_cols=54 Identities=19% Similarity=0.231 Sum_probs=44.2
Q ss_pred HHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce
Q 028837 113 RIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL 167 (203)
Q Consensus 113 RVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL 167 (203)
-|+||.+- ..|..|+---..-+..+...|++.....|..++...+|+||+..||
T Consensus 34 aIRRlARr-~GVkRi~G~~yeE~~~~~k~fl~n~i~~A~~yt~HAKRKTvT~~dv 87 (103)
T KOG3467|consen 34 AIRRLARR-GGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDV 87 (103)
T ss_pred HHHHHHHh-cCcchhchhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhceeeHHHH
Confidence 35555543 4566777666677888999999999999999999999999999998
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=51.87 E-value=35 Score=29.86 Aligned_cols=33 Identities=15% Similarity=0.233 Sum_probs=28.7
Q ss_pred CCccchhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028837 122 SSDIGITGEAVFLVNKATDKFLEQFCEDAYECC 154 (203)
Q Consensus 122 pDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A 154 (203)
-..+.|+.+++-+|..|+|.||..|...++..+
T Consensus 219 ~GL~gvs~~~a~ll~~ale~~LK~lI~s~l~~~ 251 (252)
T PF12767_consen 219 HGLGGVSDDCANLLNLALEVHLKNLIKSCLDLV 251 (252)
T ss_pred cCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 344679999999999999999999999987653
No 67
>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=45.84 E-value=29 Score=33.18 Aligned_cols=46 Identities=11% Similarity=0.224 Sum_probs=43.8
Q ss_pred CCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce
Q 028837 122 SSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL 167 (203)
Q Consensus 122 pDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL 167 (203)
-.+.+|..|++.+++.-.|.=|..++++|.......+|..|+-+||
T Consensus 18 lGi~Ni~Dd~l~alamDlEYRI~ev~qea~KFmvhSKRtvLt~dDi 63 (450)
T COG5095 18 LGISNIDDDALRALAMDLEYRIKEVCQEASKFMVHSKRTVLTIDDI 63 (450)
T ss_pred cCCcccccHHHHHHHHhHHHHHHHHHHHHHHHhhcccceeeeHHhH
Confidence 4688999999999999999999999999999999999999999999
No 68
>KOG0750 consensus Mitochondrial solute carrier protein [Energy production and conversion]
Probab=22.31 E-value=1e+02 Score=28.71 Aligned_cols=77 Identities=14% Similarity=0.089 Sum_probs=57.2
Q ss_pred CCCCChHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCce--EEeeCCcccccccccC
Q 028837 106 VCNFPMGRIKRIFKTQSSDIGITGEAVFLVNKATDKFLEQFCEDAYECCAKDRKKSLAYKHL--VVSEQSKYDFLSDYVP 183 (203)
Q Consensus 106 ~~~LPlARVKrIMK~DpDv~~IS~EA~~lIaKAtELFIq~La~~A~~~A~~~kRKTL~y~DL--aV~~~~~fdFL~DIVP 183 (203)
...+|+.-.|=-||..+.+..-. -..|+.++..-|..+. ..+...+=----..|+ .+...+-|.||.+..|
T Consensus 128 vvttPmelLKIqmQd~gr~a~~~------~~~at~l~~~lLr~~G-if~LYkG~G~T~aRdvpfS~~yFplfA~l~~lgp 200 (304)
T KOG0750|consen 128 VVTTPMELLKIQMQDAGRVAAAT------KVFATRLTWKLLRDEG-IFGLYKGLGATLARDVPFSFAYFPLFAFLNELGP 200 (304)
T ss_pred EEeccHHHHHhhhhcCccccccc------ccchhHHHHHHHHhhh-HHHHHhccchhhhccCcccEEeechhHHHHhhcc
Confidence 34589999999999888766542 4568888888888886 3344544333345577 8899999999999999
Q ss_pred CcccHH
Q 028837 184 EKIKAE 189 (203)
Q Consensus 184 ~ki~l~ 189 (203)
++...+
T Consensus 201 r~~D~S 206 (304)
T KOG0750|consen 201 RKKDGS 206 (304)
T ss_pred CCCCcc
Confidence 876543
Done!