Query 017098
Match_columns 377
No_of_seqs 124 out of 1093
Neff 3.5
Searched_HMMs 46136
Date Fri Mar 29 05:35:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017098.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017098hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd05504 Bromo_Acf1_like Bromod 99.6 1.1E-15 2.3E-20 129.6 8.3 63 1-64 53-115 (115)
2 cd05497 Bromo_Brdt_I_like Brom 99.6 1.5E-15 3.3E-20 127.2 7.8 60 1-61 48-107 (107)
3 cd05501 Bromo_SP100C_like Brom 99.6 1.9E-15 4.2E-20 127.0 7.7 59 1-61 41-99 (102)
4 KOG1474 Transcription initiati 99.6 1.4E-15 3.1E-20 159.7 7.9 66 1-67 265-330 (640)
5 cd05503 Bromo_BAZ2A_B_like Bro 99.6 2.5E-15 5.5E-20 123.0 7.0 57 1-58 41-97 (97)
6 cd05495 Bromo_cbp_like Bromodo 99.6 4.2E-15 9E-20 124.6 8.0 60 1-61 47-106 (108)
7 cd05505 Bromo_WSTF_like Bromod 99.6 3.7E-15 8.1E-20 123.1 7.0 56 1-57 41-96 (97)
8 cd05496 Bromo_WDR9_II Bromodom 99.6 5.4E-15 1.2E-19 126.6 7.8 61 1-62 46-107 (119)
9 cd05506 Bromo_plant1 Bromodoma 99.6 6.5E-15 1.4E-19 119.9 7.1 57 1-58 43-99 (99)
10 cd05509 Bromo_gcn5_like Bromod 99.6 1E-14 2.2E-19 119.4 8.0 60 1-61 42-101 (101)
11 cd05498 Bromo_Brdt_II_like Bro 99.6 8.6E-15 1.9E-19 119.9 7.0 57 1-58 46-102 (102)
12 cd05499 Bromo_BDF1_2_II Bromod 99.5 1.1E-14 2.4E-19 119.7 7.0 57 1-58 46-102 (102)
13 cd05516 Bromo_SNF2L2 Bromodoma 99.5 1.6E-14 3.4E-19 120.8 7.8 60 1-61 48-107 (107)
14 cd05508 Bromo_RACK7 Bromodomai 99.5 1.6E-14 3.6E-19 119.9 7.0 56 1-57 43-98 (99)
15 cd05507 Bromo_brd8_like Bromod 99.5 2.4E-14 5.2E-19 119.0 7.7 59 1-60 44-102 (104)
16 cd05502 Bromo_tif1_like Bromod 99.5 3.5E-14 7.6E-19 118.3 8.0 60 1-61 44-106 (109)
17 cd05510 Bromo_SPT7_like Bromod 99.5 4E-14 8.6E-19 119.9 8.2 61 1-62 49-110 (112)
18 cd05524 Bromo_polybromo_I Brom 99.5 3.7E-14 8E-19 119.9 7.9 60 1-61 49-108 (113)
19 cd05518 Bromo_polybromo_IV Bro 99.5 4.7E-14 1E-18 117.7 7.1 56 1-57 47-102 (103)
20 cd05520 Bromo_polybromo_III Br 99.5 6.5E-14 1.4E-18 116.7 7.3 56 1-57 47-102 (103)
21 cd05500 Bromo_BDF1_2_I Bromodo 99.5 6.7E-14 1.5E-18 115.6 7.1 56 1-57 47-102 (103)
22 smart00297 BROMO bromo domain. 99.5 1.2E-13 2.5E-18 111.6 7.9 59 1-60 48-106 (107)
23 cd05515 Bromo_polybromo_V Brom 99.5 9.7E-14 2.1E-18 115.5 7.5 58 1-59 47-104 (105)
24 cd05519 Bromo_SNF2 Bromodomain 99.5 9E-14 1.9E-18 114.9 7.0 57 1-58 47-103 (103)
25 cd05511 Bromo_TFIID Bromodomai 99.5 1.7E-13 3.8E-18 115.5 8.0 60 1-61 41-100 (112)
26 cd05517 Bromo_polybromo_II Bro 99.5 1.4E-13 3.1E-18 114.6 7.1 55 1-56 47-101 (103)
27 cd05528 Bromo_AAA Bromodomain; 99.4 2.2E-13 4.8E-18 115.3 8.1 61 1-62 44-108 (112)
28 cd05525 Bromo_ASH1 Bromodomain 99.4 1.8E-13 4E-18 114.8 7.3 56 1-57 49-104 (106)
29 cd05529 Bromo_WDR9_I_like Brom 99.4 2E-13 4.3E-18 117.7 7.5 58 1-59 69-126 (128)
30 cd05513 Bromo_brd7_like Bromod 99.4 1.6E-13 3.5E-18 113.8 6.6 54 1-55 42-95 (98)
31 cd05512 Bromo_brd1_like Bromod 99.4 2.2E-13 4.9E-18 112.6 6.8 53 1-54 42-94 (98)
32 cd04369 Bromodomain Bromodomai 99.4 3.5E-13 7.6E-18 104.2 7.1 57 1-58 43-99 (99)
33 cd05522 Bromo_Rsc1_2_II Bromod 99.4 3.6E-13 7.9E-18 112.1 7.4 56 1-57 48-103 (104)
34 cd05492 Bromo_ZMYND11 Bromodom 99.4 6.6E-13 1.4E-17 112.7 7.9 60 1-61 47-106 (109)
35 cd05521 Bromo_Rsc1_2_I Bromodo 99.4 1.4E-12 2.9E-17 109.7 7.3 56 1-59 48-103 (106)
36 PF00439 Bromodomain: Bromodom 99.3 3.8E-12 8.2E-17 98.8 6.1 48 1-49 37-84 (84)
37 cd05526 Bromo_polybromo_VI Bro 99.2 1.8E-11 4E-16 104.5 7.7 60 1-61 48-107 (110)
38 COG5076 Transcription factor i 99.2 2.9E-11 6.3E-16 119.0 7.0 64 1-65 189-252 (371)
39 cd05491 Bromo_TBP7_like Bromod 99.0 2.2E-10 4.8E-15 99.4 4.1 40 1-41 65-104 (119)
40 KOG1245 Chromatin remodeling c 98.5 1E-07 2.2E-12 108.6 6.0 59 1-61 1342-1400(1404)
41 KOG1472 Histone acetyltransfer 98.0 2.1E-06 4.6E-11 92.5 2.6 64 1-65 647-710 (720)
42 KOG1827 Chromatin remodeling c 97.4 0.00017 3.6E-09 77.3 4.9 57 1-58 99-155 (629)
43 KOG0955 PHD finger protein BR1 97.4 0.00015 3.3E-09 81.2 4.4 61 1-62 606-666 (1051)
44 KOG1472 Histone acetyltransfer 96.6 0.0017 3.6E-08 70.8 3.5 44 1-45 327-370 (720)
45 KOG0386 Chromatin remodeling c 96.4 0.0033 7.1E-08 70.6 4.2 61 1-62 1071-1131(1157)
46 KOG0008 Transcription initiati 96.1 0.0057 1.2E-07 70.3 4.3 50 1-51 1423-1472(1563)
47 KOG1474 Transcription initiati 95.9 0.0032 6.8E-08 67.5 1.2 61 1-62 35-95 (640)
48 KOG1828 IRF-2-binding protein 95.6 0.0053 1.2E-07 63.0 1.6 50 1-52 249-298 (418)
49 cd05493 Bromo_ALL-1 Bromodomai 95.3 0.03 6.4E-07 50.0 4.9 65 1-66 60-124 (131)
50 KOG1828 IRF-2-binding protein 92.9 0.016 3.5E-07 59.6 -1.8 52 1-53 60-111 (418)
51 cd05494 Bromodomain_1 Bromodom 92.8 0.029 6.3E-07 48.1 -0.1 41 1-41 46-92 (114)
52 KOG0008 Transcription initiati 90.5 0.27 5.9E-06 57.3 4.2 55 1-56 1302-1357(1563)
53 PF14372 DUF4413: Domain of un 82.6 4.5 9.8E-05 33.7 6.3 49 14-62 4-52 (101)
54 COG5076 Transcription factor i 80.7 0.59 1.3E-05 46.8 0.4 58 1-59 304-361 (371)
55 KOG0644 Uncharacterized conser 71.3 2.6 5.7E-05 47.8 2.3 55 2-57 1055-1109(1113)
56 PF13945 NST1: Salt tolerance 58.1 5.4 0.00012 37.8 1.4 14 133-146 138-151 (190)
57 PF11708 Slu7: Pre-mRNA splici 46.5 32 0.00069 33.6 4.6 11 340-350 227-237 (239)
58 PTZ00415 transmission-blocking 40.8 11 0.00024 46.1 0.7 6 97-102 85-90 (2849)
59 PF11705 RNA_pol_3_Rpc31: DNA- 27.0 23 0.0005 33.5 0.3 26 43-68 50-75 (233)
60 TIGR02606 antidote_CC2985 puta 26.5 94 0.002 24.6 3.6 27 4-31 12-38 (69)
61 KOG1832 HIV-1 Vpr-binding prot 24.6 39 0.00084 39.5 1.5 11 32-42 1234-1244(1516)
62 KOG0732 AAA+-type ATPase conta 24.1 30 0.00066 40.4 0.6 39 1-40 561-601 (1080)
No 1
>cd05504 Bromo_Acf1_like Bromodomain; Acf1_like or BAZ1A_like subfamily. Bromo adjacent to zinc finger 1A (BAZ1A) was identified as a novel human bromodomain gene by cDNA library screening. The Drosophila homologue, Acf1, is part of the CHRAC (chromatin accessibility complex) and regulates ISWI-induced nucleosome remodeling. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.62 E-value=1.1e-15 Score=129.56 Aligned_cols=63 Identities=30% Similarity=0.532 Sum_probs=61.1
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcCCC
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAGLY 64 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkigL~ 64 (377)
|||+||++||..+ .|.|+.+|..||+|||.||++||++++.++.+|..|+++|++.+.++++.
T Consensus 53 mDL~tI~~kL~~~-~Y~s~~~f~~Dv~LI~~Na~~yN~~~s~i~~~A~~l~~~f~~~~~~~~~~ 115 (115)
T cd05504 53 MDLGTIKEKLNMG-EYKLAEEFLSDIQLVFSNCFLYNPEHTSVYKAGTRLQRFFIKRCRKLGLP 115 (115)
T ss_pred ccHHHHHHHHccC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHhCCC
Confidence 8999999999998 99999999999999999999999999999999999999999999998863
No 2
>cd05497 Bromo_Brdt_I_like Bromodomain, Brdt_like subfamily, repeat I. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.61 E-value=1.5e-15 Score=127.22 Aligned_cols=60 Identities=30% Similarity=0.553 Sum_probs=57.9
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA 61 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki 61 (377)
|||+||++||+.+ .|.++.+|..||+|||.||++||++++.|+.+|..|+++|++.+.++
T Consensus 48 mDL~tI~~kL~~~-~Y~s~~ef~~D~~li~~Na~~yN~~~s~i~~~A~~l~~~f~~~l~~~ 107 (107)
T cd05497 48 MDLGTIKKRLENN-YYWSASECIQDFNTMFTNCYIYNKPGDDVVLMAQTLEKLFLQKLAQM 107 (107)
T ss_pred ccHHHHHHHHcCC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHcC
Confidence 8999999999997 99999999999999999999999999999999999999999988754
No 3
>cd05501 Bromo_SP100C_like Bromodomain, SP100C_like subfamily. The SP100C protein is a splice variant of SP100, a major component of PML-SP100 nuclear bodies (NBs), which are poorly understood. It is covalently modified by SUMO-1 and may play a role in processes at the chromatin level. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.60 E-value=1.9e-15 Score=127.01 Aligned_cols=59 Identities=17% Similarity=0.241 Sum_probs=57.1
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA 61 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki 61 (377)
|||+||++||.++ .|.|+.+|..||+|||.||++||+++ .++.+|..|++.|+++|..+
T Consensus 41 MDL~tI~~kL~~~-~Y~s~~ef~~D~~Lif~N~~~yN~~~-~~~~~a~~L~~~Fek~~~~~ 99 (102)
T cd05501 41 MWLNKVKERLNER-VYHTVEGFVRDMRLIFHNHKLFYKDD-DFGQVGITLEKKFEKNFKEV 99 (102)
T ss_pred CCHHHHHHHHcCC-CCCCHHHHHHHHHHHHHHHHHHcCCC-HHHHHHHHHHHHHHHHHHHH
Confidence 9999999999998 99999999999999999999999999 99999999999999999864
No 4
>KOG1474 consensus Transcription initiation factor TFIID, subunit BDF1 and related bromodomain proteins [Transcription]
Probab=99.59 E-value=1.4e-15 Score=159.74 Aligned_cols=66 Identities=33% Similarity=0.661 Sum_probs=63.2
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcCCCCCC
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAGLYTEQ 67 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkigL~~Eq 67 (377)
|||+||++||.++ .|.+..+|+.||+|||.||++||++|+.||.||..|+++|+.+|+.+++..+.
T Consensus 265 MDLgTIK~kL~~~-~Y~~~~eF~~DVRL~F~Ncm~YNp~g~dV~~Ma~~L~~~Fe~rw~~~~~~~~~ 330 (640)
T KOG1474|consen 265 MDLGTIKKKLEKG-EYKSAEEFAADVRLTFDNCMTYNPEGSDVYAMAKKLQEVFEERWASMPLEIEE 330 (640)
T ss_pred ccHHHHHhhhccc-ccCCHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhhccccccc
Confidence 9999999999998 99999999999999999999999999999999999999999999998766663
No 5
>cd05503 Bromo_BAZ2A_B_like Bromodomain, BAZ2A/BAZ2B_like subfamily. Bromo adjacent to zinc finger 2A (BAZ2A) and 2B (BAZ2B) were identified as a novel human bromodomain gene by cDNA library screening. BAZ2A is also known as Tip5 (Transcription termination factor I-interacting protein 5) and hWALp3. The proteins may play roles in transcriptional regulation. Human Tip5 is part of a complex termed NoRC (nucleolar remodeling complex), which induces nucleosome sliding and may play a role in the regulation of the rDNA locus. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.59 E-value=2.5e-15 Score=123.05 Aligned_cols=57 Identities=33% Similarity=0.640 Sum_probs=55.9
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHH
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLW 58 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~ 58 (377)
|||+||++||+.+ .|.|+.+|..||+|||.||+.||++++.++.+|..|+++|++.|
T Consensus 41 mdL~tI~~kl~~~-~Y~s~~ef~~D~~li~~Na~~yN~~~s~i~~~a~~l~~~f~~~~ 97 (97)
T cd05503 41 MDFSTIREKLESG-QYKTLEEFAEDVRLVFDNCETFNEDDSEVGRAGHNMRKFFEKRW 97 (97)
T ss_pred CCHHHHHHHHccC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhC
Confidence 8999999999998 99999999999999999999999999999999999999999987
No 6
>cd05495 Bromo_cbp_like Bromodomain, cbp_like subfamily. Cbp (CREB binding protein or CREBBP) is an acetyltransferase acting on histone, which gives a specific tag for transcriptional activation and also acetylates non-histone proteins. CREBBP binds specifically to phosphorylated CREB protein and augments the activity of phosphorylated CREB to activate transcription of cAMP-responsive genes. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.58 E-value=4.2e-15 Score=124.59 Aligned_cols=60 Identities=23% Similarity=0.360 Sum_probs=57.7
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA 61 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki 61 (377)
|||+||++||.+| .|.++.+|..||+|||.||+.||++++.++.+|..|+++|++.+..+
T Consensus 47 mDL~tI~~kL~~~-~Y~s~~ef~~D~~li~~Na~~yN~~~s~i~~~a~~l~~~F~~~~~~~ 106 (108)
T cd05495 47 MDLSTIRRKLDTG-QYQDPWQYVDDVWLMFDNAWLYNRKTSRVYKYCTKLAEVFEQEIDPV 106 (108)
T ss_pred CCHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 8999999999998 99999999999999999999999999999999999999999988753
No 7
>cd05505 Bromo_WSTF_like Bromodomain; Williams syndrome transcription factor-like subfamily (WSTF-like). The Williams-Beuren syndrome deletion transcript 9 is a putative transcriptional regulator. WSTF was found to play a role in vitamin D-mediated transcription as part of two chromatin remodeling complexes, WINAC and WICH. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.57 E-value=3.7e-15 Score=123.07 Aligned_cols=56 Identities=25% Similarity=0.579 Sum_probs=54.6
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHH
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKL 57 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~ 57 (377)
|||+||++||+.+ .|.|+.+|.+||+|||.||++||++++.|+.+|..|+++|..+
T Consensus 41 mDL~tI~~kl~~~-~Y~s~~ef~~D~~li~~Na~~yN~~~s~i~~~a~~le~~f~~~ 96 (97)
T cd05505 41 MDLQTMQTKCSCG-SYSSVQEFLDDMKLVFSNAEKYYENGSYVLSCMRKTEQCCVNL 96 (97)
T ss_pred CCHHHHHHHHcCC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHh
Confidence 8999999999997 9999999999999999999999999999999999999999875
No 8
>cd05496 Bromo_WDR9_II Bromodomain; WDR9 repeat II_like subfamily. WDR9 is a human gene located in the Down Syndrome critical region-2 of chromosome 21. It encodes for a nuclear protein containing WD40 repeats and two bromodomains, which may function as a transcriptional regulator involved in chromatin remodeling and play a role in embryonic development. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.57 E-value=5.4e-15 Score=126.64 Aligned_cols=61 Identities=26% Similarity=0.382 Sum_probs=58.5
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCC-CCHHHHHHHHHHHHHHHHHHHcC
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSK-GDYILDLMKRVKKNFMKLWMAAG 62 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~p-gS~Iy~~Ak~LEk~FeK~~kkig 62 (377)
|||+||++||..+ .|.++.+|..||+|||.||++||++ ++.|+.+|..|+++|++.+.++.
T Consensus 46 mDL~tIk~kL~~~-~Y~~~~ef~~D~~lif~Na~~yN~~~~s~i~~~a~~L~~~F~~~~~~l~ 107 (119)
T cd05496 46 MDLGTVKETLFGG-NYDDPMEFAKDVRLIFSNSKSYTPNKRSRIYSMTLRLSALFEEHIKKII 107 (119)
T ss_pred ccHHHHHHHHhCC-CCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 8999999999998 9999999999999999999999985 99999999999999999998774
No 9
>cd05506 Bromo_plant1 Bromodomain, uncharacterized subfamily specific to plants. Might function as a global transcription factor. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.56 E-value=6.5e-15 Score=119.86 Aligned_cols=57 Identities=33% Similarity=0.625 Sum_probs=56.0
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHH
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLW 58 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~ 58 (377)
|||+||++||+++ .|.++.+|..||+|||.||++||++++.++.+|..|++.|+++|
T Consensus 43 ~dl~tI~~kL~~~-~Y~s~~ef~~D~~li~~Na~~yn~~~s~i~~~a~~l~~~fe~~w 99 (99)
T cd05506 43 MDLGTVKKKLEKG-EYSSPEEFAADVRLTFANAMRYNPPGNDVHTMAKELLKIFETRW 99 (99)
T ss_pred CCHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhC
Confidence 8999999999997 99999999999999999999999999999999999999999987
No 10
>cd05509 Bromo_gcn5_like Bromodomain; Gcn5_like subfamily. Gcn5p is a histone acetyltransferase (HAT) which mediates acetylation of histones at lysine residues; such acetylation is generally correlated with the activation of transcription. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.56 E-value=1e-14 Score=119.35 Aligned_cols=60 Identities=30% Similarity=0.508 Sum_probs=57.8
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA 61 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki 61 (377)
|||+||++||..+ .|.|+.+|..||+|||.||++||++++.++.+|..|++.|++++.++
T Consensus 42 mdL~tI~~kl~~~-~Y~s~~~f~~Dv~li~~Na~~yN~~~s~~~~~a~~l~~~f~~~~~~~ 101 (101)
T cd05509 42 MDLSTMEEKLENG-YYVTLEEFVADLKLIFDNCRLYNGPDTEYYKCANKLEKFFWKKLKEL 101 (101)
T ss_pred CCHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhhC
Confidence 8999999999998 99999999999999999999999999999999999999999988753
No 11
>cd05498 Bromo_Brdt_II_like Bromodomain, Brdt_like subfamily, repeat II. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.55 E-value=8.6e-15 Score=119.92 Aligned_cols=57 Identities=28% Similarity=0.627 Sum_probs=55.9
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHH
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLW 58 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~ 58 (377)
|||+||++||..+ .|.|+.+|..||+|||.||+.||++++.++.+|..|++.|+++|
T Consensus 46 mdl~~I~~kl~~~-~Y~s~~ef~~D~~li~~Na~~yn~~~s~i~~~a~~l~~~fe~~~ 102 (102)
T cd05498 46 MDLSTIKKKLDNR-EYADAQEFAADVRLMFSNCYKYNPPDHPVHAMARKLQDVFEDRW 102 (102)
T ss_pred CcHHHHHHHHccC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhC
Confidence 8999999999997 99999999999999999999999999999999999999999987
No 12
>cd05499 Bromo_BDF1_2_II Bromodomain. BDF1/BDF2 like subfamily, restricted to fungi, repeat II. BDF1 and BDF2 are yeast transcription factors involved in the expression of a wide range of genes, including snRNAs; they are required for sporulation and DNA repair and protect histone H4 from deacetylation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.54 E-value=1.1e-14 Score=119.66 Aligned_cols=57 Identities=32% Similarity=0.714 Sum_probs=55.8
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHH
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLW 58 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~ 58 (377)
|||+||++||+.+ .|.++.+|..||+|||.||+.||++++.++.+|..|++.|+++|
T Consensus 46 ~dL~~I~~kl~~~-~Y~s~~ef~~D~~li~~N~~~yn~~~s~~~~~a~~l~~~fe~~~ 102 (102)
T cd05499 46 MDLGTISKKLQNG-QYQSAKEFERDVRLIFKNCYTFNPEGTDVYMMGHQLEEVFNDKW 102 (102)
T ss_pred CCHHHHHHHHcCC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhC
Confidence 8999999999998 99999999999999999999999999999999999999999876
No 13
>cd05516 Bromo_SNF2L2 Bromodomain, SNF2L2-like subfamily, specific to animals. SNF2L2 (SNF2-alpha) or SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 2 is a global transcriptional activator, which cooperates with nuclear hormone receptors to boost transcriptional activation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.54 E-value=1.6e-14 Score=120.80 Aligned_cols=60 Identities=27% Similarity=0.375 Sum_probs=57.8
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA 61 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki 61 (377)
|||+||++||..+ .|.++.+|..||+|||.||++||++++.||.+|..|+++|..++.++
T Consensus 48 mdl~tI~~kl~~~-~Y~s~~ef~~D~~li~~Na~~yN~~~s~i~~~a~~l~~~f~~~~~~~ 107 (107)
T cd05516 48 VDFKKIKERIRNH-KYRSLEDLEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFKSARQKI 107 (107)
T ss_pred CCHHHHHHHHccC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcC
Confidence 8999999999998 99999999999999999999999999999999999999999988753
No 14
>cd05508 Bromo_RACK7 Bromodomain, RACK7_like subfamily. RACK7 (also called human protein kinase C-binding protein) was identified as a potential tumor suppressor genes, it shares domain architecture with BS69/ZMYND11; both have been implicated in the regulation of cellular proliferation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.53 E-value=1.6e-14 Score=119.93 Aligned_cols=56 Identities=21% Similarity=0.306 Sum_probs=54.0
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHH
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKL 57 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~ 57 (377)
|||+||++||.++ .|.++++|..||+|||.||++||+++|.++.+|..|.+.|...
T Consensus 43 mDL~tI~~kl~~~-~Y~s~~ef~~Dv~LI~~Na~~YN~~~s~i~~~A~~l~~~~~~e 98 (99)
T cd05508 43 MDLSTLEKNVRKK-AYGSTDAFLADAKWILHNAIIYNGGDHKLTQAAKAIVKICEQE 98 (99)
T ss_pred CCHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhh
Confidence 8999999999998 9999999999999999999999999999999999999998763
No 15
>cd05507 Bromo_brd8_like Bromodomain, brd8_like subgroup. In mammals, brd8 (bromodomain containing 8) interacts with the thyroid hormone receptor in a ligand-dependent fashion and enhances thyroid hormone-dependent activation from thyroid response elements. Brd8 is thought to be a nuclear receptor coactivator. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.52 E-value=2.4e-14 Score=118.97 Aligned_cols=59 Identities=25% Similarity=0.402 Sum_probs=56.7
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHH
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMA 60 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kk 60 (377)
|||+||++||..+ .|.++.+|..||+|||.||++||++++.++.+|..|++.|.+.+..
T Consensus 44 mDL~tI~~kl~~~-~Y~s~~ef~~D~~li~~Na~~yN~~~s~v~~~A~~l~~~~~~~~~~ 102 (104)
T cd05507 44 MDLSTIKKNIENG-TIRSTAEFQRDVLLMFQNAIMYNSSDHDVYLMAVEMQREVMSQIQQ 102 (104)
T ss_pred cCHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHhhc
Confidence 8999999999998 9999999999999999999999999999999999999999987754
No 16
>cd05502 Bromo_tif1_like Bromodomain; tif1_like subfamily. Tif1 (transcription intermediary factor 1) is a member of the tripartite motif (TRIM) protein family, which is characterized by a particular domain architecture. It functions by recruiting coactivators and/or corepressors to modulate transcription. Vertebrate Tif1-gamma, also labeled E3 ubiquitin-protein ligase TRIM33, plays a role in the control of hematopoiesis. Its homologue in Xenopus laevis, Ectodermin, has been shown to function in germ-layer specification and control of cell growth during embryogenesis. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.52 E-value=3.5e-14 Score=118.33 Aligned_cols=60 Identities=23% Similarity=0.402 Sum_probs=58.1
Q ss_pred CCHHHHHHHhhC---CCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098 1 MDFGTICSNLEN---GGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA 61 (377)
Q Consensus 1 MDLsTIKkKLe~---G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki 61 (377)
|||+||++||+. + .|.++.+|..||+|||.||+.||++++.++.+|..|++.|+++|..+
T Consensus 44 mdL~tI~~kL~~~~~~-~Y~s~~~f~~D~~li~~Na~~yN~~~s~i~~~a~~l~~~f~~~~~~~ 106 (109)
T cd05502 44 MDLSLIRKKLQPKSPQ-HYSSPEEFVADVRLMFKNCYKFNEEDSEVAQAGKELELFFEEQLKEI 106 (109)
T ss_pred ccHHHHHHHHhcCCCC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 899999999998 5 99999999999999999999999999999999999999999999875
No 17
>cd05510 Bromo_SPT7_like Bromodomain; SPT7_like subfamily. SPT7 is a yeast protein that functions as a component of the transcription regulatory histone acetylation (HAT) complexes SAGA, SALSA, and SLIK. SAGA is involved in the RNA polymerase II-dependent transcriptional regulation of about 10% of all yeast genes. The SPT7 bromodomain has been shown to weakly interact with acetylated histone H3, but not H4. The human representative of this subfamily is cat eye syndrome critical region protein 2 (CECR2). Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.51 E-value=4e-14 Score=119.94 Aligned_cols=61 Identities=30% Similarity=0.457 Sum_probs=57.1
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCC-HHHHHHHHHHHHHHHHHHHcC
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGD-YILDLMKRVKKNFMKLWMAAG 62 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS-~Iy~~Ak~LEk~FeK~~kkig 62 (377)
|||+||++||.++ .|.|+.+|.+||+|||.||+.||++++ .++.+|..|+++|++++..++
T Consensus 49 mdL~tI~~kl~~~-~Y~s~~ef~~D~~Li~~N~~~yN~~~s~~~~~~A~~l~~~~~~~~~~~~ 110 (112)
T cd05510 49 MDLGTMLKKLKNL-QYKSKAEFVDDLNLIWKNCLLYNSDPSHPLRRHANFMKKKAEHLLKLIP 110 (112)
T ss_pred cCHHHHHHHHhCC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCC
Confidence 8999999999997 999999999999999999999999876 577999999999999988763
No 18
>cd05524 Bromo_polybromo_I Bromodomain, polybromo repeat I. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.
Probab=99.51 E-value=3.7e-14 Score=119.90 Aligned_cols=60 Identities=17% Similarity=0.210 Sum_probs=58.3
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA 61 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki 61 (377)
|||+||++||..+ .|.|+.+|..||+|||.||++||++++.++.+|..|+++|++.++++
T Consensus 49 mdl~tI~~kl~~~-~Y~s~~~f~~D~~lm~~Na~~yN~~~s~~~~~A~~L~~~f~~~~~~~ 108 (113)
T cd05524 49 IDLLKIQQKLKTE-EYDDVDDLTADFELLINNAKAYYKPDSPEHKDACKLWELFLSARNEV 108 (113)
T ss_pred cCHHHHHHHhCcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence 8999999999997 99999999999999999999999999999999999999999998865
No 19
>cd05518 Bromo_polybromo_IV Bromodomain, polybromo repeat IV. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.
Probab=99.49 E-value=4.7e-14 Score=117.68 Aligned_cols=56 Identities=25% Similarity=0.483 Sum_probs=54.2
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHH
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKL 57 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~ 57 (377)
|||+||++||..+ .|.|+.+|..||.|||.||+.||+++|.|+.+|..|+++|+..
T Consensus 47 mdl~tI~~kl~~~-~Y~s~~ef~~D~~li~~Na~~yN~~~s~i~~~A~~le~~~~~~ 102 (103)
T cd05518 47 IDLKTIEHNIRND-KYATEEELMDDFKLMFRNARHYNEEGSQVYEDANILEKVLKEK 102 (103)
T ss_pred cCHHHHHHHHCCC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhc
Confidence 8999999999997 9999999999999999999999999999999999999999863
No 20
>cd05520 Bromo_polybromo_III Bromodomain, polybromo repeat III. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.
Probab=99.49 E-value=6.5e-14 Score=116.69 Aligned_cols=56 Identities=23% Similarity=0.438 Sum_probs=54.3
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHH
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKL 57 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~ 57 (377)
|||+||++||..+ .|.++.+|..||+|||.||++||++++.++.+|..|+++|+..
T Consensus 47 mdL~tI~~kl~~~-~Y~s~~~f~~D~~lm~~Na~~yN~~~s~i~~~A~~L~~~f~~~ 102 (103)
T cd05520 47 ISLQQIRTKLKNG-EYETLEELEADLNLMFENAKRYNVPNSRIYKDAEKLQKLMQAK 102 (103)
T ss_pred cCHHHHHHHHccC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHh
Confidence 8999999999997 9999999999999999999999999999999999999999863
No 21
>cd05500 Bromo_BDF1_2_I Bromodomain. BDF1/BDF2 like subfamily, restricted to fungi, repeat I. BDF1 and BDF2 are yeast transcription factors involved in the expression of a wide range of genes, including snRNAs; they are required for sporulation and DNA repair and protect histone H4 from deacetylation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.48 E-value=6.7e-14 Score=115.62 Aligned_cols=56 Identities=29% Similarity=0.487 Sum_probs=54.6
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHH
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKL 57 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~ 57 (377)
|||+||++||..+ .|.++.+|..||+|||.||+.||++++.++.+|..|++.|++.
T Consensus 47 ~dL~tI~~kl~~~-~Y~s~~~f~~D~~li~~Na~~yN~~~s~~~~~A~~l~~~fe~~ 102 (103)
T cd05500 47 MDLGTIERKLKSN-VYTSVEEFTADFNLMVDNCLTFNGPEHPVSQMGKRLQAAFEKH 102 (103)
T ss_pred CCHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHh
Confidence 8999999999997 9999999999999999999999999999999999999999975
No 22
>smart00297 BROMO bromo domain.
Probab=99.48 E-value=1.2e-13 Score=111.64 Aligned_cols=59 Identities=34% Similarity=0.513 Sum_probs=57.5
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHH
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMA 60 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kk 60 (377)
|||+||++||..+ .|.|+.+|..||+|||.||+.||++++.++.+|..|.+.|.+.|.+
T Consensus 48 ~dl~~I~~kl~~~-~Y~s~~ef~~D~~li~~Na~~~n~~~s~~~~~a~~l~~~f~~~~~~ 106 (107)
T smart00297 48 MDLSTIKKKLENG-KYSSVEEFVADVQLMFSNAKTYNGPDSEVYKDAKKLEKFFEKKLRE 106 (107)
T ss_pred CCHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhh
Confidence 8999999999998 9999999999999999999999999999999999999999999875
No 23
>cd05515 Bromo_polybromo_V Bromodomain, polybromo repeat V. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.
Probab=99.47 E-value=9.7e-14 Score=115.54 Aligned_cols=58 Identities=22% Similarity=0.369 Sum_probs=55.6
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHH
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWM 59 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~k 59 (377)
|||+||++||..+ .|.++.+|..||.|||.||++||+++|.|+.+|..|+++|.+..+
T Consensus 47 mdL~tI~~kl~~~-~Y~s~~ef~~D~~l~~~Na~~yN~~~s~i~~~A~~L~~~~~~~~~ 104 (105)
T cd05515 47 IDMEKIRSKIEGN-QYQSLDDMVSDFVLMFDNACKYNEPDSQIYKDALTLQKVLLETKR 104 (105)
T ss_pred cCHHHHHHHHccC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHc
Confidence 8999999999997 999999999999999999999999999999999999999987653
No 24
>cd05519 Bromo_SNF2 Bromodomain, SNF2-like subfamily, specific to fungi. SNF2 is a yeast protein involved in transcriptional activation, it is the catalytic component of the SWI/SNF ATP-dependent chromatin remodeling complex. The protein is essential for the regulation of gene expression (both positive and negative) of a large number of genes. The SWI/SNF complex changes chromatin structure by altering DNA-histone contacts within the nucleosome, which results in a re-positioning of the nucleosome and facilitates or represses the binding of gene-specific transcription factors. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.47 E-value=9e-14 Score=114.87 Aligned_cols=57 Identities=21% Similarity=0.443 Sum_probs=54.9
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHH
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLW 58 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~ 58 (377)
|||+||++||..+ .|.|+.+|..||+|||.||++||++++.++.+|..|++.|+..+
T Consensus 47 mdl~~I~~kl~~~-~Y~s~~~f~~D~~li~~Na~~yn~~~s~i~~~A~~l~~~f~~~~ 103 (103)
T cd05519 47 IALDQIKRRIEGR-AYKSLEEFLEDFHLMFANARTYNQEGSIVYEDAVEMEKAFKKKY 103 (103)
T ss_pred cCHHHHHHHHccC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhC
Confidence 8999999999997 99999999999999999999999999999999999999998753
No 25
>cd05511 Bromo_TFIID Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, a large multi-domain complex, which initiates the assembly of the transcription machinery. TAFII250 contains two bromodomains that specifically bind to acetylated histone H4. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.46 E-value=1.7e-13 Score=115.50 Aligned_cols=60 Identities=25% Similarity=0.323 Sum_probs=58.2
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA 61 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki 61 (377)
|||+||++||..+ .|.++.+|..||+|||.||+.||++++.++.+|..|.+.|...+..+
T Consensus 41 mdL~tI~~kl~~~-~Y~s~~ef~~Dv~li~~Na~~yN~~~s~i~~~A~~l~~~~~~~~~~~ 100 (112)
T cd05511 41 MDLQTIRKKISKH-KYQSREEFLEDIELIVDNSVLYNGPDSVYTKKAKEMLELAEELLAER 100 (112)
T ss_pred CCHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence 8999999999997 99999999999999999999999999999999999999999988865
No 26
>cd05517 Bromo_polybromo_II Bromodomain, polybromo repeat II. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.
Probab=99.45 E-value=1.4e-13 Score=114.64 Aligned_cols=55 Identities=27% Similarity=0.501 Sum_probs=53.7
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHH
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMK 56 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK 56 (377)
|||+||++||..+ .|.++.+|..||+|||.||++||++++.|+.+|..|+++|..
T Consensus 47 mdL~tI~~kl~~~-~Y~s~~~f~~D~~lm~~Na~~yN~~~s~i~~~A~~l~~~f~~ 101 (103)
T cd05517 47 IDLKTIAQRIQSG-YYKSIEDMEKDLDLMVKNAKTFNEPGSQVYKDANAIKKIFTA 101 (103)
T ss_pred cCHHHHHHHHCcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHh
Confidence 8999999999997 999999999999999999999999999999999999999975
No 27
>cd05528 Bromo_AAA Bromodomain; sub-family co-occurring with AAA domains. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine. The structure(2DKW) in this alignment is an uncharacterized protein predicted from analysis of cDNA clones from human fetal liver
Probab=99.45 E-value=2.2e-13 Score=115.26 Aligned_cols=61 Identities=25% Similarity=0.380 Sum_probs=58.0
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCC----CHHHHHHHHHHHHHHHHHHHcC
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKG----DYILDLMKRVKKNFMKLWMAAG 62 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pg----S~Iy~~Ak~LEk~FeK~~kkig 62 (377)
|||+||++||.++ .|.|+.+|..||+|||.||+.||+++ +.|+.+|..|++.|..++.++.
T Consensus 44 mdL~tI~~kl~~~-~Y~s~~ef~~Dv~li~~Na~~yN~~~s~~~s~i~~~A~~L~~~~~~~~~~~~ 108 (112)
T cd05528 44 MDLQTILQKLDTH-QYLTAKDFLKDIDLIVTNALEYNPDRDPADKLIRSRACELRDEVHAMIEAEL 108 (112)
T ss_pred CCHHHHHHHHcCC-CcCCHHHHHHHHHHHHHHHHHHCCCCCccccHHHHHHHHHHHHHHHHHHhcC
Confidence 8999999999997 99999999999999999999999994 6999999999999999998764
No 28
>cd05525 Bromo_ASH1 Bromodomain; ASH1_like sub-family. ASH1 (absent, small, or homeotic 1) is a member of the trithorax-group in Drosophila melanogaster, an epigenetic transcriptional regulator of HOX genes. Drosophila ASH1 has been shown to methylate specific lysines in histones H3 and H4. Mammalian ASH1 has been shown to methylate histone H3. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.45 E-value=1.8e-13 Score=114.78 Aligned_cols=56 Identities=23% Similarity=0.359 Sum_probs=54.4
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHH
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKL 57 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~ 57 (377)
|||+||++||..+ .|.|+.+|..||.|||.||++||+++|.|+.+|..|+++|+..
T Consensus 49 ~dL~tI~~kl~~~-~Y~s~~ef~~D~~l~f~Na~~yn~~~S~i~~~A~~L~~~f~~~ 104 (106)
T cd05525 49 VDLSTIEKQILTG-YYKTPEAFDSDMLKVFRNAEKYYGRKSPIGRDVCRLRKAYYQA 104 (106)
T ss_pred cCHHHHHHHHcCC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHc
Confidence 8999999999998 9999999999999999999999999999999999999999864
No 29
>cd05529 Bromo_WDR9_I_like Bromodomain; WDR9 repeat I_like subfamily. WDR9 is a human gene located in the Down Syndrome critical region-2 of chromosome 21. It encodes for a nuclear protein containing WD40 repeats and two bromodomains, which may function as a transcriptional regulator involved in chromatin remodeling and play a role in embryonic development. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.44 E-value=2e-13 Score=117.69 Aligned_cols=58 Identities=31% Similarity=0.424 Sum_probs=56.3
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHH
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWM 59 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~k 59 (377)
|||+||++||..+ .|.++.+|..||+|||.||++||++++.++.+|..|+++|.+++.
T Consensus 69 mdL~tI~~kl~~~-~Y~s~~~f~~Dv~Li~~Na~~yN~~~s~i~~~A~~l~~~~~~~l~ 126 (128)
T cd05529 69 MDLETIRSRLENR-YYRSLEALRHDVRLILSNAETFNEPNSEIAKKAKRLSDWLLRILS 126 (128)
T ss_pred CCHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHhc
Confidence 8999999999998 999999999999999999999999999999999999999998875
No 30
>cd05513 Bromo_brd7_like Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown to inhibit cell growth and the progression of the cell cycle by regulating cell-cycle genes at the transcriptional level. BRD7 has been identified as a gene involved in nasopharyngeal carcinoma. The protein interacts with acetylated histone H3 via its bromodomain. Bromodomains are 110 amino acid long domains that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.44 E-value=1.6e-13 Score=113.81 Aligned_cols=54 Identities=28% Similarity=0.433 Sum_probs=51.2
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHH
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFM 55 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~Fe 55 (377)
|||+||++||+.+ .|.|+.+|.+||+|||.||++||++++.++.+|..|...-.
T Consensus 42 mDL~tI~~kl~~~-~Y~s~~~f~~D~~li~~Na~~yN~~~s~~~~~A~~L~~~~~ 95 (98)
T cd05513 42 MDFSTMKEKIKNN-DYQSIEEFKDDFKLMCENAMKYNKPDTIYYKAAKKLLHSGM 95 (98)
T ss_pred cCHHHHHHHHhCC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHhhh
Confidence 8999999999997 99999999999999999999999999999999999976543
No 31
>cd05512 Bromo_brd1_like Bromodomain; brd1_like subfamily. BRD1 is a mammalian gene which encodes for a nuclear protein assumed to be a transcriptional regulator. BRD1 has been implicated with brain development and susceptibility to schizophrenia and bipolar affective disorder. Bromodomains are 110 amino acid long domains that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.43 E-value=2.2e-13 Score=112.57 Aligned_cols=53 Identities=32% Similarity=0.494 Sum_probs=50.8
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHH
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNF 54 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~F 54 (377)
|||+||++||..+ .|.++.+|..||+|||.||+.||.+++.+|.+|..|++.-
T Consensus 42 mDL~tI~~kl~~~-~Y~s~~ef~~D~~li~~Na~~yN~~~s~~~~~A~~l~~~~ 94 (98)
T cd05512 42 MDFSTMRKKLESQ-RYRTLEDFEADFNLIINNCLAYNAKDTIFYRAAVRLRDQG 94 (98)
T ss_pred cCHHHHHHHHhCC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHhh
Confidence 8999999999998 9999999999999999999999999999999999998753
No 32
>cd04369 Bromodomain Bromodomain. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.
Probab=99.43 E-value=3.5e-13 Score=104.24 Aligned_cols=57 Identities=39% Similarity=0.577 Sum_probs=55.0
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHH
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLW 58 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~ 58 (377)
|||+||+.||..+ .|.++.+|..||+|||.||+.||++++.++.+|..|...|.+.|
T Consensus 43 ~~l~~I~~kl~~~-~Y~s~~~f~~D~~li~~Na~~~n~~~~~~~~~a~~l~~~~~~~~ 99 (99)
T cd04369 43 MDLSTIKKKLKNG-EYKSLEEFEADVRLIFSNAKTYNGPGSPIYKDAKKLEKLFEKLL 99 (99)
T ss_pred ccHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhC
Confidence 8999999999998 99999999999999999999999999999999999999998754
No 33
>cd05522 Bromo_Rsc1_2_II Bromodomain, repeat II in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are components of the RSC complex (remodeling the structure of chromatin), are essential for transcriptional control, and have a specific domain architecture including two bromodomains. The RSC complex has also been linked to homologous recombination and nonhomologous end-joining repair of DNA double strand breaks. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.42 E-value=3.6e-13 Score=112.09 Aligned_cols=56 Identities=18% Similarity=0.284 Sum_probs=54.5
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHH
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKL 57 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~ 57 (377)
|||+||++||..+ .|.++.+|..||+|||.||+.||++++.++.+|..|++.|+++
T Consensus 48 mdl~tI~~kl~~~-~Y~s~~~f~~D~~li~~Na~~yn~~~s~i~~~A~~l~~~f~~l 103 (104)
T cd05522 48 ISLDDIKKKVKRR-KYKSFDQFLNDLNLMFENAKLYNENDSQEYKDAVLLEKEARLL 103 (104)
T ss_pred cCHHHHHHHHccC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHh
Confidence 8999999999997 9999999999999999999999999999999999999999874
No 34
>cd05492 Bromo_ZMYND11 Bromodomain; ZMYND11_like sub-family. ZMYND11 or BS69 is a ubiquitously expressed nuclear protein that has been shown to associate with chromatin. It interacts with chromatin remodeling factors and might play a role in chromatin remodeling and gene expression. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.40 E-value=6.6e-13 Score=112.75 Aligned_cols=60 Identities=13% Similarity=0.189 Sum_probs=55.5
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA 61 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki 61 (377)
|||+||++||..+ .|+++++|..||+|||.||..||++++.++.+|..|-+-...-+.++
T Consensus 47 mDL~tI~~kl~~~-~Y~s~~ef~~Dv~LI~~N~~~yNg~~s~~~~~A~~l~~d~~~el~Ei 106 (109)
T cd05492 47 LDVADIQEKINSE-KYTSLEEFKADALLLLHNTAIFHGADSEQYDAARWLYRDTCHDLREL 106 (109)
T ss_pred CcHHHHHHHHHcC-CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 8999999999998 99999999999999999999999999999999999988766655554
No 35
>cd05521 Bromo_Rsc1_2_I Bromodomain, repeat I in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are components of the RSC complex (remodeling the structure of chromatin), are essential for transcriptional control, and have a specific domain architecture including two bromodomains. The RSC complex has also been linked to homologous recombination and nonhomologous end-joining repair of DNA double strand breaks. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=99.36 E-value=1.4e-12 Score=109.70 Aligned_cols=56 Identities=23% Similarity=0.359 Sum_probs=53.8
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHH
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWM 59 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~k 59 (377)
|||+||++||.. |.++.+|..||.|||.||++||++++.++.+|..|+++|.+.+.
T Consensus 48 mdL~tI~~kl~~---Y~s~~ef~~D~~li~~Na~~yN~~~s~i~~~A~~le~~~~~~~~ 103 (106)
T cd05521 48 LSLNTVKKRLPH---YTNAQEFVNDLAQIPWNARLYNTKGSVIYKYALILEKYINDVII 103 (106)
T ss_pred CCHHHHHHHHHc---CCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHhhc
Confidence 899999999997 99999999999999999999999999999999999999998654
No 36
>PF00439 Bromodomain: Bromodomain; InterPro: IPR001487 Bromodomains are found in a variety of mammalian, invertebrate and yeast DNA-binding proteins []. Bromodomains can interact with acetylated lysine []. In some proteins, the classical bromodomain has diverged to such an extent that parts of the region are either missing or contain an insertion (e.g., mammalian protein HRX, Caenorhabditis elegans hypothetical protein ZK783.4, yeast protein YTA7). The bromodomain may occur as a single copy, or in duplicate. The precise function of the domain is unclear, but it may be involved in protein-protein interactions and may play a role in assembly or activity of multi-component complexes involved in transcriptional activation [].; GO: 0005515 protein binding; PDB: 3P1C_A 4A9K_B 3SVH_A 3P1E_B 3P1F_A 1JSP_B 2L85_A 3P1D_B 3DWY_B 2D82_A ....
Probab=99.30 E-value=3.8e-12 Score=98.79 Aligned_cols=48 Identities=38% Similarity=0.605 Sum_probs=44.5
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHH
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKR 49 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~ 49 (377)
|||+||+.||..+ .|.++.+|..||+|||.||+.||++++.++.+|..
T Consensus 37 ~dL~~I~~kl~~~-~Y~s~~~f~~Dv~~i~~Na~~yn~~~s~~~~~A~~ 84 (84)
T PF00439_consen 37 MDLSTIRKKLENG-KYKSIEEFEADVRLIFQNARRYNPPDSPIYKAAEK 84 (84)
T ss_dssp --HHHHHHHHHTT-SSSSHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHH
T ss_pred cchhhhhHHhhcc-chhhHHHHHHHHHHHHHHHHHHCCCcCHHHHHhcC
Confidence 8999999999998 99999999999999999999999999999999863
No 37
>cd05526 Bromo_polybromo_VI Bromodomain, polybromo repeat VI. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.
Probab=99.24 E-value=1.8e-11 Score=104.48 Aligned_cols=60 Identities=15% Similarity=0.285 Sum_probs=57.0
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA 61 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki 61 (377)
|||.+|++||..| .|.++++|..||.|||.||++||.++|.||..|..|+++|.+...++
T Consensus 48 i~l~~Ik~ki~~~-~Y~~ld~~~~D~~lmf~NAr~yN~~~S~iy~dA~eLq~~f~~~rd~~ 107 (110)
T cd05526 48 LTLDIIKRNVDKG-RYRRLDKFQEDMFEVLERARRLSRTDSEIYEDAVELQQFFIKIRDEL 107 (110)
T ss_pred ccHHHHHHHHHcC-CcCcHHHHHHHHHHHHHHHHHhCcccCHHHHHHHHHHHHHHHHHHHH
Confidence 7999999999998 99999999999999999999999999999999999999999876543
No 38
>COG5076 Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin structure and dynamics / Transcription]
Probab=99.19 E-value=2.9e-11 Score=119.02 Aligned_cols=64 Identities=30% Similarity=0.463 Sum_probs=60.3
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcCCCC
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAGLYT 65 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkigL~~ 65 (377)
|||+||+++|..+ .|.++++|..|++|||.||++||.+++.+|.+|..|++.|.+++..+....
T Consensus 189 m~L~~i~kkl~~~-~Y~s~eef~~D~~lM~~N~~~yN~~~s~v~~~a~~l~~~~~~~i~~~~~~~ 252 (371)
T COG5076 189 MDLLTIQKKLKNG-RYKSFEEFVSDLNLMFDNCKLYNGPDSSVYVDAKELEKYFLKLIEEIPEEM 252 (371)
T ss_pred hhHHHHHHHHHhh-hhhhHHHHHHHHHHHHHhhhhccCCCcchhhhhHHHHHHHHHHHHhccccc
Confidence 8999999999998 999999999999999999999999999999999999999999998765433
No 39
>cd05491 Bromo_TBP7_like Bromodomain; TBP7_like subfamily, limited to fungi. TBP7, or TAT-binding protein homolog 7, is a yeast protein of unknown function that contains AAA-superfamily ATP-ase domains and a bromodomain. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.
Probab=99.01 E-value=2.2e-10 Score=99.43 Aligned_cols=40 Identities=30% Similarity=0.457 Sum_probs=38.2
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCC
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGD 41 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS 41 (377)
|||+||++||.+| +|.++.+|+.||+|||.||++||.++.
T Consensus 65 MDL~tIe~RL~ng-~Y~tp~~F~~DiklI~~Nc~~ynd~dr 104 (119)
T cd05491 65 MDLDTIEERLWNG-YYATPKDFLKDIKRIVRDAKTIGDRER 104 (119)
T ss_pred cCHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHhCCHHH
Confidence 9999999999998 999999999999999999999998754
No 40
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=98.52 E-value=1e-07 Score=108.58 Aligned_cols=59 Identities=31% Similarity=0.562 Sum_probs=57.0
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHc
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAA 61 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kki 61 (377)
|||+||+.||..+ .|.+..+|..||.|||.||.+||.+ +.|+.++-.|.++|.+.|...
T Consensus 1342 mdl~tir~k~~~~-~Y~~~eef~~Di~lvf~Nc~~yN~~-s~i~~ag~~l~~ff~~~~~~~ 1400 (1404)
T KOG1245|consen 1342 MDLSTIREKLSKG-IYPSPEEFATDIELVFDNCETYNED-SEIGRAGTCLRRFFHKRWRKK 1400 (1404)
T ss_pred hHHHHHHHHHhcc-cCCCHHHHHHHHHHHHHHHHHhccc-hhhhhhcchHHHHHHHHHHhh
Confidence 9999999999998 9999999999999999999999999 999999999999999988754
No 41
>KOG1472 consensus Histone acetyltransferase SAGA/ADA, catalytic subunit PCAF/GCN5 and related proteins [Chromatin structure and dynamics; Transcription]
Probab=98.04 E-value=2.1e-06 Score=92.49 Aligned_cols=64 Identities=23% Similarity=0.338 Sum_probs=59.7
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcCCCC
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAGLYT 65 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkigL~~ 65 (377)
|||.||..+|..+ +|..+..|+.|+.+||.||+.||+.++.+|..|..+..+|...+....++.
T Consensus 647 mDl~tM~~~l~~~-~y~~~~~f~ad~~~vf~ncr~yn~~~~~y~k~~~~le~~~~~k~~~~i~~~ 710 (720)
T KOG1472|consen 647 MDLRTMQNRLKDN-QYTEVELFMADVVRVFANCRMYNGSDTQYYKCAQALEKFFLFKLNELILRV 710 (720)
T ss_pred ccHHHHhhhcccc-chhhHHHHHHHHHHHHhhhhccCCccchheecccchhhhhcchhhhhhhhh
Confidence 8999999999998 999999999999999999999999999999999999999998887664443
No 42
>KOG1827 consensus Chromatin remodeling complex RSC, subunit RSC1/Polybromo and related proteins [Chromatin structure and dynamics; Transcription]
Probab=97.40 E-value=0.00017 Score=77.26 Aligned_cols=57 Identities=21% Similarity=0.280 Sum_probs=54.3
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHH
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLW 58 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~ 58 (377)
|.|.-|++|+..+ .|.+.+.|..||.|++.||+.||.+++.+|.++..|+..|..+.
T Consensus 99 isl~~ik~kv~k~-~y~~~~~f~~D~~lm~ena~~~n~~ds~~~~~s~~l~~~~~~~~ 155 (629)
T KOG1827|consen 99 ISLDQIKRKVKKG-RYKRLSFFQLDFLLMTENARLYNRPDSLIYKDSGELEKYFISLE 155 (629)
T ss_pred ccHHHHHHHHHhc-ccccHHHHHHHHHHHHHHHHHhcCcchhhhhhhhhhhcchhhhh
Confidence 6789999999998 99999999999999999999999999999999999999998755
No 43
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=97.37 E-value=0.00015 Score=81.23 Aligned_cols=61 Identities=33% Similarity=0.442 Sum_probs=55.6
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcC
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAG 62 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkig 62 (377)
|||.||+.+++++ .|.++++|..|+.||..||+.||..++.+|..|..+...-.+.+..+.
T Consensus 606 md~~t~~~kl~s~-~y~tle~ieed~~l~~~nc~~yn~~dtv~~r~av~~~e~~~~~~~~ar 666 (1051)
T KOG0955|consen 606 MDFFTMRLKLESG-AYSTLEPIEEDVNLIVSNCMEYNAKDTVYYRAAVRLRELIKKDFRNAR 666 (1051)
T ss_pred cchhhhhhhcccc-chhhhhHHHHhHhHhHhHHHHhhccCeehHhhhHHHHhhhhhHHHhcc
Confidence 8999999999998 999999999999999999999999999999999999886666665443
No 44
>KOG1472 consensus Histone acetyltransferase SAGA/ADA, catalytic subunit PCAF/GCN5 and related proteins [Chromatin structure and dynamics; Transcription]
Probab=96.57 E-value=0.0017 Score=70.76 Aligned_cols=44 Identities=39% Similarity=0.662 Sum_probs=40.2
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHH
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILD 45 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~ 45 (377)
|||+|+.+||..+ .|.+.+.|+.|+.+||.||.+||...+....
T Consensus 327 mdl~t~~~k~~~~-~y~~~~~fv~d~~~~~~n~~~~n~ee~~~~~ 370 (720)
T KOG1472|consen 327 MDLSTELKKLKSG-PYCSKEEFVNDLMLIWRNCEKYNSEESHGLI 370 (720)
T ss_pred hHHHHHHHHhccc-cccchhHHHHHHHHHHhcchhhccccchhhh
Confidence 8999999999997 9999999999999999999999988665443
No 45
>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription]
Probab=96.35 E-value=0.0033 Score=70.63 Aligned_cols=61 Identities=20% Similarity=0.327 Sum_probs=56.9
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcC
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAG 62 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkig 62 (377)
|+|..|+++|... .|.+..+...||.++|.|+++||..||.||..|..|+.+|......+.
T Consensus 1071 ~~~~~~~~~i~~~-~~~~~~~~~~~~~~~~~na~~~~~egs~~y~d~~~l~~~~~~~~~~~~ 1131 (1157)
T KOG0386|consen 1071 VAIDKIKKRIENH-KYNSLKELEKDFMLLFNNARTYNEEGSRVYEDAIVLQSVFKSARQEIS 1131 (1157)
T ss_pred hhHHHHhhhcccc-ccchHHHHHHHHHhhcchhhhhccCCceechhHHHHHHHHhhhHHHHh
Confidence 5789999999997 999999999999999999999999999999999999999998777653
No 46
>KOG0008 consensus Transcription initiation factor TFIID, subunit TAF1 [Transcription]
Probab=96.07 E-value=0.0057 Score=70.32 Aligned_cols=50 Identities=26% Similarity=0.412 Sum_probs=44.4
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHH
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVK 51 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LE 51 (377)
|||.||.+++... .|.+.++|..||+||+.||..||+..+.+..-|..+-
T Consensus 1423 mdl~~i~~n~~~~-~y~s~~e~l~dv~~i~~n~~~~ng~e~~y~~k~~k~~ 1472 (1563)
T KOG0008|consen 1423 MDLETILKNIPPH-KYDSRSEFLDDVNLIYVNSVEYNGAESAYTKKARKIG 1472 (1563)
T ss_pred hhHHHHhhcCCcc-ccccHHHHhhhhHhhcccceeecCccccccHHHHHHH
Confidence 8999999999996 9999999999999999999999999887665555443
No 47
>KOG1474 consensus Transcription initiation factor TFIID, subunit BDF1 and related bromodomain proteins [Transcription]
Probab=95.86 E-value=0.0032 Score=67.55 Aligned_cols=61 Identities=28% Similarity=0.489 Sum_probs=56.7
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcC
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAG 62 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkig 62 (377)
||++||..+|+.+ +|.+..+..+|+.-+|.||+.||.+...|+.++..++..|.+....+.
T Consensus 35 ~d~~~~~~~~e~n-~~~~~~~~~~~f~~~~sn~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~ 95 (640)
T KOG1474|consen 35 MDIGTIEKRVENN-YYFSASECIADFKTKFSNCYLFNDSGDDVVRMKQSLEKLFPKKLRSMP 95 (640)
T ss_pred CCchhhhhhhccC-ccccHhhhhhhccccccchhcccCCccchhhccccchhhccccccccc
Confidence 8999999999995 999999999999999999999999999999999999999987776543
No 48
>KOG1828 consensus IRF-2-binding protein CELTIX-1, contains BROMO domain [Transcription]
Probab=95.62 E-value=0.0053 Score=63.01 Aligned_cols=50 Identities=12% Similarity=0.064 Sum_probs=46.9
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHH
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKK 52 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk 52 (377)
||++|++.|..++ .|.| -+|..|+.||..|+++||.+...+|.+|+.+.-
T Consensus 249 ~~~~Tygdk~~an-dy~S-~~f~~D~kl~~l~amT~gehsk~yyelank~lh 298 (418)
T KOG1828|consen 249 EPPGTYGDKSSAN-DYES-LSFTQDRKLIALKAVTNGEHSKSYYELANKQLH 298 (418)
T ss_pred CCCcchhhhhhhh-hhhh-hhhhcccchhhHHHHhcCCcchHHHHHHHhhhh
Confidence 6899999999997 9999 999999999999999999999999999988765
No 49
>cd05493 Bromo_ALL-1 Bromodomain, ALL-1 like proteins. ALL-1 is a vertebrate homologue of Drosophila trithorax and is often affected in chromosomal rearrangements that are linked to acute leukemias, such as acute lymphocytic leukemia (ALL). Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.
Probab=95.27 E-value=0.03 Score=49.98 Aligned_cols=65 Identities=20% Similarity=0.192 Sum_probs=52.4
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcCCCCC
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAGLYTE 66 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkigL~~E 66 (377)
.||..|++||+.| .|+++.+|..||-.|+.=++.-.+..-.+-+.-..++-+|-+++.++..|..
T Consensus 60 ~dL~~V~kkl~~G-~Y~sv~~F~~DvvkIiqa~l~~e~~~pe~~ka~s~~Ksf~ik~me~vf~Wf~ 124 (131)
T cd05493 60 LDLEAVGKKLEAG-FYTSVLDFSDDIVKIIQAALNSEGGQPEIKKANSMAKSFFIKLMESVFPWFN 124 (131)
T ss_pred ccHHHHHHHHhcc-ceehHHHHHHHHHHHHHHHHhhccCCccccCcchHHHHHHHHHHHHhccccc
Confidence 3899999999999 9999999999999999988766655555556555666688888888776654
No 50
>KOG1828 consensus IRF-2-binding protein CELTIX-1, contains BROMO domain [Transcription]
Probab=92.92 E-value=0.016 Score=59.58 Aligned_cols=52 Identities=21% Similarity=0.128 Sum_probs=48.9
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHH
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKN 53 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~ 53 (377)
||+.||+.|+..+ +|.+..+|.-|..||..|+..||...+.++..|++|..+
T Consensus 60 md~~t~r~kidd~-~yl~L~~m~~d~kl~~~na~~yn~~~Tv~~~aaKrL~~v 111 (418)
T KOG1828|consen 60 MDRITKRSKIDDT-RYLVLSQMEFDRKLPDGNATLYNLHPTVPIVAAKRLCPV 111 (418)
T ss_pred cccccccccCCCc-cceechhhhhhhcccccchhhhhcCCccccccccccchh
Confidence 8999999999997 999999999999999999999999999999888888653
No 51
>cd05494 Bromodomain_1 Bromodomain; uncharacterized subfamily. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.
Probab=92.85 E-value=0.029 Score=48.09 Aligned_cols=41 Identities=20% Similarity=0.038 Sum_probs=33.2
Q ss_pred CCHHHHHHHhhCC------CCCCCHHHHHHHHHHHHhhhhccCCCCC
Q 017098 1 MDFGTICSNLENG------GKYMNSEDVYKDVEYIWENCNKYNSKGD 41 (377)
Q Consensus 1 MDLsTIKkKLe~G------~kYkSveEF~sDVrLIFsNC~kYN~pgS 41 (377)
|||+||+++|..+ ..|.--.++.+++..+|.||..||.-+-
T Consensus 46 MDL~ti~~kl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (114)
T cd05494 46 MSFGTKVNNIVETGARDLEDLQIVQEDPADKQIDDEGRRSPSNIYAV 92 (114)
T ss_pred CChHHHHHHHHccccccccccccccccccccccccccccCcccccch
Confidence 9999999999993 2566567778888999999998887543
No 52
>KOG0008 consensus Transcription initiation factor TFIID, subunit TAF1 [Transcription]
Probab=90.50 E-value=0.27 Score=57.28 Aligned_cols=55 Identities=22% Similarity=0.247 Sum_probs=47.3
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHH-HHHHHH
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRV-KKNFMK 56 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~L-Ek~FeK 56 (377)
|||.|+++.+..- .|.+-+.|..|+.||+.|..+||++.+.+...+..+ ...|++
T Consensus 1302 ~~lq~~kk~v~kr-~y~~r~~fle~~~~~~~ns~~yng~~~~~t~~~q~mls~~~~~ 1357 (1563)
T KOG0008|consen 1302 MDLQTQKKLVRKR-LYESREHFLEELPLIVSNSTKYNGPLASLTRQQQSMLSLCFEK 1357 (1563)
T ss_pred cchHHHHHHHHHH-HHHHHHHHHHHhHHHhhchhhhcCchHHHHHHHHHHHHHHHHh
Confidence 8999999999995 999999999999999999999999988777666644 445543
No 53
>PF14372 DUF4413: Domain of unknown function (DUF4413)
Probab=82.58 E-value=4.5 Score=33.70 Aligned_cols=49 Identities=18% Similarity=0.363 Sum_probs=43.3
Q ss_pred CCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHHHcC
Q 017098 14 GKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWMAAG 62 (377)
Q Consensus 14 ~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~kkig 62 (377)
..|-|..-|...|-.|-.....++..+..+..+|..|...|.++|.+..
T Consensus 4 ~~~pTsn~~f~~i~~i~~~l~~~~~~d~~l~~ma~~M~~KfdKYw~~~~ 52 (101)
T PF14372_consen 4 SSYPTSNLYFHEIWKIKDLLRDWNNDDPDLKNMAKKMKEKFDKYWKDCN 52 (101)
T ss_pred CCcCcHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHhH
Confidence 4899999999999888888888887788999999999999999998653
No 54
>COG5076 Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin structure and dynamics / Transcription]
Probab=80.65 E-value=0.59 Score=46.79 Aligned_cols=58 Identities=22% Similarity=0.292 Sum_probs=52.3
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHHHH
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKLWM 59 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~~k 59 (377)
|++.|..-+|..+ .|.....|..|..++|.||..||.....++.-+..+..+|...+.
T Consensus 304 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 361 (371)
T COG5076 304 MDLSTKELKLRNN-YYRPEETFVRDAKLFFDNCVMYNGEVTDYYKNANVLEDFVIKKTR 361 (371)
T ss_pred cccccchhhhhcc-cCCCccccccccchhhhcccccchhhhhhhhhccchhhhHhhhhh
Confidence 6788889999997 999999999999999999999999999999989888888776554
No 55
>KOG0644 consensus Uncharacterized conserved protein, contains WD40 repeat and BROMO domains [General function prediction only]
Probab=71.26 E-value=2.6 Score=47.78 Aligned_cols=55 Identities=20% Similarity=0.271 Sum_probs=47.0
Q ss_pred CHHHHHHHhhCCCCCCCHHHHHHHHHHHHhhhhccCCCCCHHHHHHHHHHHHHHHH
Q 017098 2 DFGTICSNLENGGKYMNSEDVYKDVEYIWENCNKYNSKGDYILDLMKRVKKNFMKL 57 (377)
Q Consensus 2 DLsTIKkKLe~G~kYkSveEF~sDVrLIFsNC~kYN~pgS~Iy~~Ak~LEk~FeK~ 57 (377)
-|..|..+|+++ +|++++.|..||..|..|+.+|-.-+..+...+..|...|.+-
T Consensus 1055 s~evi~~rlEn~-yYrs~e~~~hdvs~mlsnae~~fg~~~~~~~ki~~l~~~~~~T 1109 (1113)
T KOG0644|consen 1055 SLEVIRSRLENN-YYRSQEALRHDVSVMLSNAETFFGRNKNVAIKISFLSPWFDRT 1109 (1113)
T ss_pred cHHHHHHHHHhh-hhhhhHhhhcchhhhhcccceeecccccHHHHhhhcchhhhhh
Confidence 467899999997 9999999999999999999999988877776666776666653
No 56
>PF13945 NST1: Salt tolerance down-regulator
Probab=58.06 E-value=5.4 Score=37.78 Aligned_cols=14 Identities=50% Similarity=1.186 Sum_probs=11.0
Q ss_pred CCCCccchhhhhhh
Q 017098 133 HKHDCLCAICVLKR 146 (377)
Q Consensus 133 hk~dc~cavc~~~r 146 (377)
.++.|.|+||+-+|
T Consensus 138 q~h~C~C~vCgr~~ 151 (190)
T PF13945_consen 138 QKHSCSCSVCGRKR 151 (190)
T ss_pred hccCcccHHHhchh
Confidence 35789999999553
No 57
>PF11708 Slu7: Pre-mRNA splicing Prp18-interacting factor; InterPro: IPR021715 The spliceosome, an assembly of snRNAs (U1, U2, U4/U6, and U5) and proteins, catalyses the excision of introns from pre-mRNAs in two successive trans-esterification reactions. Step 2 depends upon integral spliceosome constituents such as U5 snRNA and Prp8 and non-spliceosomal proteins Prp16, Slu7, Prp18, and Prp22. ATP hydrolysis by the DEAH-box enzyme Prp16 promotes a conformational change in the spliceosome that leads to protection of the 3'ss from targeted RNase H cleavage. This change, which probably reflects binding of the 3'ss PyAG in the catalytic centre of the spliceosome, requires the ordered recruitment of Slu7, Prp18, and Prp22 to the spliceosome. There is a close functional relationship between Prp8, Prp18, and Slu7, and Prp18 interacts with Slu7, so that together they recruit Prp22 to the spliceosome. Most members of the family carry a zinc-finger of the CCHC-type upstream of this domain.
Probab=46.52 E-value=32 Score=33.58 Aligned_cols=11 Identities=55% Similarity=1.168 Sum_probs=10.0
Q ss_pred hccCCCCCCcc
Q 017098 340 TLFPNDHTSVW 350 (377)
Q Consensus 340 tLFP~n~~Svw 350 (377)
-.|++||+|||
T Consensus 227 Dv~~~NHtsVW 237 (239)
T PF11708_consen 227 DVYINNHTSVW 237 (239)
T ss_pred hhccCCCCeec
Confidence 47999999999
No 58
>PTZ00415 transmission-blocking target antigen s230; Provisional
Probab=40.77 E-value=11 Score=46.05 Aligned_cols=6 Identities=33% Similarity=0.479 Sum_probs=2.3
Q ss_pred cCcccc
Q 017098 97 KSYDIK 102 (377)
Q Consensus 97 k~~dv~ 102 (377)
+++.|+
T Consensus 85 ~~~~~~ 90 (2849)
T PTZ00415 85 KDTSVK 90 (2849)
T ss_pred cccccc
Confidence 333333
No 59
>PF11705 RNA_pol_3_Rpc31: DNA-directed RNA polymerase III subunit Rpc31; InterPro: IPR024661 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. RNA polymerase III contains seventeen subunits in yeasts and in human cells. Twelve of these are akin to RNA polymerase I or II and the other five are RNA polymerase III-specific, and form the functionally distinct groups: (i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31, Rpc34 and Rpc82 form a cluster of enzyme-specific subunits that contribute to transcription initiation in Saccharomyces cerevisiae and Homo sapiens. There is evidence that these subunits are anchored at or near the N-terminal Zn-fold of Rpc1, itself prolonged by a highly conserved but RNA polymerase III-specific domain []. This entry represents the Rpc31 subunit.
Probab=27.04 E-value=23 Score=33.54 Aligned_cols=26 Identities=15% Similarity=0.169 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHHHHcCCCCCCC
Q 017098 43 ILDLMKRVKKNFMKLWMAAGLYTEQS 68 (377)
Q Consensus 43 Iy~~Ak~LEk~FeK~~kkigL~~Eq~ 68 (377)
.-.....+...|...|+..++++...
T Consensus 50 ~E~~~v~~~~~lr~~~~~sPyy~~~~ 75 (233)
T PF11705_consen 50 EERYLVALKRELRERMRDSPYYTESR 75 (233)
T ss_pred HHHHHHHHHHHHHHHHHhCCCccccc
Confidence 33445556667777888777777644
No 60
>TIGR02606 antidote_CC2985 putative addiction module antidote protein, CC2985 family. This bacterial protein family has a very similar seed alignment to that of Pfam model pfam03693 but is a more stringent model with higher cutoff scores. Proteins that score above the trusted cutoff to this model almost invariably are found adjacent to a ParE family protein (pfam05016), where ParE is the killing partner of an addiction module for plasmid stabilization. Members of this family, therefore, are putative addiction module antidote proteins. Some are encoded on plasmids or in prophage regions, but others appear chromosomal. A genome may contain several identical copies, such as the four in Magnetococcus sp. MC-1. This family is named for one member, CC2985 of Caulobacter crescentus CB15.
Probab=26.53 E-value=94 Score=24.62 Aligned_cols=27 Identities=22% Similarity=0.393 Sum_probs=23.2
Q ss_pred HHHHHHhhCCCCCCCHHHHHHHHHHHHh
Q 017098 4 GTICSNLENGGKYMNSEDVYKDVEYIWE 31 (377)
Q Consensus 4 sTIKkKLe~G~kYkSveEF~sDVrLIFs 31 (377)
..|+..+..| .|.|..+++.+--..|.
T Consensus 12 ~~i~~~V~sG-~Y~s~SEVir~aLR~le 38 (69)
T TIGR02606 12 SFIRSQVQSG-RYGSASEVVRAALRLLE 38 (69)
T ss_pred HHHHHHHHCC-CCCCHHHHHHHHHHHHH
Confidence 3588999998 99999999999877664
No 61
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=24.57 E-value=39 Score=39.49 Aligned_cols=11 Identities=9% Similarity=0.193 Sum_probs=4.5
Q ss_pred hhhccCCCCCH
Q 017098 32 NCNKYNSKGDY 42 (377)
Q Consensus 32 NC~kYN~pgS~ 42 (377)
||..||+-++.
T Consensus 1234 n~a~FsP~D~L 1244 (1516)
T KOG1832|consen 1234 NLAHFSPCDTL 1244 (1516)
T ss_pred cccccCCCcce
Confidence 34444444333
No 62
>KOG0732 consensus AAA+-type ATPase containing the bromodomain [Posttranslational modification, protein turnover, chaperones]
Probab=24.10 E-value=30 Score=40.38 Aligned_cols=39 Identities=13% Similarity=0.078 Sum_probs=36.4
Q ss_pred CCHHHHHHHhhCCCCCCCHHHHHH--HHHHHHhhhhccCCCC
Q 017098 1 MDFGTICSNLENGGKYMNSEDVYK--DVEYIWENCNKYNSKG 40 (377)
Q Consensus 1 MDLsTIKkKLe~G~kYkSveEF~s--DVrLIFsNC~kYN~pg 40 (377)
||+.....++..+ .|.++.+|.. ++.|||.|++.||+..
T Consensus 561 ~~va~~~~k~~e~-~~~~v~~~e~~~~i~lic~~~lli~~~~ 601 (1080)
T KOG0732|consen 561 MDVASSMAKIEEH-LKLLVRSFESNFAIRLICRPRLLINGGK 601 (1080)
T ss_pred hhHHhhhhhHHHH-hHHHHHhhhcccchhhhcCcHHhcCCCc
Confidence 7888889999996 9999999999 9999999999999886
Done!