Query 028625
Match_columns 206
No_of_seqs 187 out of 554
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 14:26:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028625.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028625hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1657 CCAAT-binding factor, 100.0 6.6E-30 1.4E-34 222.9 8.3 156 37-199 50-236 (236)
2 COG5208 HAP5 CCAAT-binding fac 99.9 8.8E-24 1.9E-28 185.2 5.4 105 14-118 56-191 (286)
3 KOG1659 Class 2 transcription 99.3 5.8E-13 1.3E-17 116.0 2.8 61 56-116 8-93 (224)
4 COG5247 BUR6 Class 2 transcrip 99.2 3.4E-12 7.3E-17 101.0 1.9 59 58-116 20-103 (113)
5 PF00808 CBFD_NFYB_HMF: Histon 99.0 1.5E-10 3.2E-15 81.6 3.6 39 61-99 2-65 (65)
6 KOG1658 DNA polymerase epsilon 98.4 4.2E-08 9.2E-13 82.4 -0.1 59 57-115 55-138 (162)
7 COG5262 HTA1 Histone H2A [Chro 97.6 4.3E-05 9.4E-10 62.4 2.3 52 59-110 24-100 (132)
8 cd00074 H2A Histone 2A; H2A is 97.4 0.0001 2.2E-09 59.0 2.7 52 59-110 18-94 (115)
9 smart00414 H2A Histone 2A. 96.5 0.0018 3.8E-08 51.2 2.3 52 59-110 7-83 (106)
10 KOG1756 Histone 2A [Chromatin 96.4 0.0024 5.3E-08 52.5 2.7 52 59-110 25-101 (131)
11 KOG0869 CCAAT-binding factor, 96.0 0.0061 1.3E-07 51.9 3.4 44 60-103 31-100 (168)
12 PLN00154 histone H2A; Provisio 96.0 0.004 8.8E-08 51.5 1.9 52 59-110 36-113 (136)
13 PTZ00017 histone H2A; Provisio 95.9 0.0051 1.1E-07 50.8 2.1 51 59-109 25-100 (134)
14 PLN00156 histone H2AX; Provisi 94.5 0.023 4.9E-07 47.3 2.0 51 59-109 27-102 (139)
15 PLN00153 histone H2A; Provisio 94.3 0.024 5.3E-07 46.6 1.8 51 59-109 22-97 (129)
16 PLN00157 histone H2A; Provisio 94.1 0.028 6.1E-07 46.4 1.7 51 59-109 24-99 (132)
17 PTZ00252 histone H2A; Provisio 93.3 0.05 1.1E-06 45.1 2.0 52 59-110 23-102 (134)
18 COG2036 HHT1 Histones H3 and H 92.4 0.16 3.6E-06 39.4 3.5 54 49-103 7-85 (91)
19 PF00125 Histone: Core histone 91.6 0.12 2.6E-06 36.6 1.9 44 58-101 5-74 (75)
20 smart00803 TAF TATA box bindin 90.2 0.45 9.7E-06 34.4 3.7 39 61-100 2-65 (65)
21 cd00076 H4 Histone H4, one of 88.7 0.69 1.5E-05 35.4 3.9 41 61-102 13-78 (85)
22 PLN00035 histone H4; Provision 83.6 1.8 4E-05 34.4 4.1 41 62-103 30-95 (103)
23 PTZ00015 histone H4; Provision 81.9 2.1 4.5E-05 33.9 3.8 43 60-103 29-96 (102)
24 KOG0871 Class 2 transcription 78.2 2.8 6E-05 35.7 3.6 52 59-110 10-87 (156)
25 cd08048 TAF11 TATA Binding Pro 76.0 2.9 6.3E-05 31.8 2.9 52 50-101 5-83 (85)
26 KOG1658 DNA polymerase epsilon 74.5 2.6 5.7E-05 36.1 2.5 56 57-112 7-82 (162)
27 smart00417 H4 Histone H4. 74.2 3.8 8.2E-05 30.7 3.0 35 61-96 13-72 (74)
28 KOG1757 Histone 2A [Chromatin 67.5 2.6 5.7E-05 34.6 1.0 51 59-109 28-104 (131)
29 KOG3219 Transcription initiati 67.0 6.3 0.00014 34.7 3.3 62 38-102 92-178 (195)
30 KOG0870 DNA polymerase epsilon 60.2 10 0.00022 32.8 3.3 51 59-109 8-85 (172)
31 PF04719 TAFII28: hTAFII28-lik 59.0 8 0.00017 29.9 2.2 51 51-101 13-89 (90)
32 smart00427 H2B Histone H2B. 57.1 14 0.00031 28.7 3.3 17 84-100 49-65 (89)
33 cd07979 TAF9 TATA Binding Prot 47.0 21 0.00045 28.4 2.9 27 83-109 47-73 (117)
34 PHA00687 hypothetical protein 38.8 13 0.00027 26.5 0.5 18 61-78 30-47 (56)
35 COG5150 Class 2 transcription 36.4 36 0.00079 28.7 2.9 50 59-108 9-84 (148)
36 PLN02720 complex II 35.5 52 0.0011 27.7 3.6 40 38-77 11-55 (140)
37 PLN00158 histone H2B; Provisio 33.0 54 0.0012 26.8 3.3 18 84-101 75-92 (116)
38 PTZ00463 histone H2B; Provisio 32.1 55 0.0012 26.8 3.2 18 84-101 76-93 (117)
39 smart00428 H3 Histone H3. 32.0 1.2E+02 0.0026 24.1 5.0 52 48-99 16-98 (105)
40 cd07981 TAF12 TATA Binding Pro 31.1 98 0.0021 22.3 4.1 22 83-104 48-69 (72)
41 KOG1560 Translation initiation 30.9 1.1E+02 0.0024 29.0 5.3 39 36-74 257-295 (339)
42 cd07420 MPP_RdgC Drosophila me 26.0 74 0.0016 29.5 3.3 52 65-116 30-93 (321)
43 PLN00155 histone H2A; Provisio 25.4 44 0.00096 24.3 1.4 16 59-74 22-37 (58)
44 COG4915 XpaC 5-bromo-4-chloroi 24.1 27 0.00059 31.0 0.1 48 64-111 84-151 (204)
45 PF08153 NGP1NT: NGP1NT (NUC09 22.9 73 0.0016 26.4 2.4 66 36-101 45-122 (130)
46 PF02969 TAF: TATA box binding 22.8 61 0.0013 23.7 1.8 18 83-100 49-66 (66)
47 KOG4811 Uncharacterized conser 21.8 69 0.0015 26.5 2.0 39 39-80 4-42 (127)
48 cd07417 MPP_PP5_C PP5, C-termi 20.4 97 0.0021 28.5 2.9 52 65-116 39-102 (316)
No 1
>KOG1657 consensus CCAAT-binding factor, subunit C (HAP5) [Transcription]
Probab=99.96 E-value=6.6e-30 Score=222.86 Aligned_cols=156 Identities=49% Similarity=0.686 Sum_probs=125.9
Q ss_pred HHHHHHHHHHHHHHHHhhcccCCCCCCHHHHHHHHhhCcccchhhh-------------------------hhhcccccc
Q 028625 37 QQQLQMFWSYQRQEIEQANDFKNHQLPLARIKKIMKADEDVRMISA-------------------------EENKRRTLQ 91 (206)
Q Consensus 37 qq~L~~FW~~q~~eiE~~~d~k~~~LPLARIKKIMKsDpDV~mISa-------------------------e~~kRkTLq 91 (206)
.++|.+||++...|+|...+|+++.|||+|||||||+|+||+||++ ++++||||+
T Consensus 50 ~~~l~~fw~~~~~e~e~~~d~~~~~lPlaRiKkimK~dedv~mI~~Eapvl~aka~E~Fi~elt~~sw~~Tee~~rrtl~ 129 (236)
T KOG1657|consen 50 RQQLQSFWSKQAIEKEGQLDFKNHILPLARIKKIMKSDEDVSMITAEAPVLFAKACELFITELTLRSWVHTEENKRRTLQ 129 (236)
T ss_pred hHHHHhhhhccccccccccchhhccCcHhhccccccccccccccchhHHHHHHHHHHHHHHHHHHHhhhhhcccccccch
Confidence 7899999999986667788999999999999999999999999998 589999999
Q ss_pred HHHHHHHHhcCCcccchhhccCCccchhh--hh-ccC-CC-cCC-CCCCCCccCCCCCCCCCCCCCCceeeccCCCCCCc
Q 028625 92 KNDIAAAITRTDIFDFLVDIVPRDEIKDE--AA-GLG-GM-VGA-TASGVPYYYPPMGQPTGTAGPGGMMIGRPAVDPTG 165 (206)
Q Consensus 92 y~DIA~AV~~~d~fDFL~DIVP~~~~k~~--~~-~~~-~~-~~~-~a~~~p~y~~~~~~~~~~~~~~g~~~g~p~~~~~~ 165 (206)
++||+.+|.+++.||||+||||++..... .. ... .. ... ...+++|.+...+ ...+|+|+++|.|.|+.
T Consensus 130 ~sdia~av~~s~~fdFL~DivP~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~g~~~~~~-- 204 (236)
T KOG1657|consen 130 KSDIAAAVTQSETFDFLRDIVPRKILAEKYPSLAAKGPGEMREDDFVAPVTYIMDNAG---IQQIPPGLVAGQPQCIR-- 204 (236)
T ss_pred HHHHHHHhccCCCccceeccccchhccccccccccCCCcccccccccccccccccccc---ccccCchhhcCCccccc--
Confidence 99999999999999999999999987752 11 111 11 111 2444666666655 33478889999999876
Q ss_pred cccCCCcccccccccCCCCCCCCCCCCCCCCCCC
Q 028625 166 VYVQPPSQAWQSVWQTPAGTGDDGSYGSGGSGGP 199 (206)
Q Consensus 166 ~~~q~p~~~~~~~~~~~~~~~~~~~~~~gg~~g~ 199 (206)
+|. |.+++ +..|++...++++.++..|+++|+
T Consensus 205 ~~~-~~~~~-q~~~~~~~~~~~~~~~~~g~~~~~ 236 (236)
T KOG1657|consen 205 LAQ-PVSGT-QGQWQTLATDAQNITGTEGQQGGQ 236 (236)
T ss_pred ccC-CCccc-cchhhhccCCcccccccccCCCCC
Confidence 444 44444 889999999999999999998874
No 2
>COG5208 HAP5 CCAAT-binding factor, subunit C [Transcription]
Probab=99.89 E-value=8.8e-24 Score=185.22 Aligned_cols=105 Identities=49% Similarity=0.802 Sum_probs=92.0
Q ss_pred CCCCCccccCCCCchhhhhhH----HHHHHHHHHHHHHHHHHHhhc--ccCCCCCCHHHHHHHHhhCcccchhhh-----
Q 028625 14 PQPPSAAAAATATAPFHHLIQ----QQQQQLQMFWSYQRQEIEQAN--DFKNHQLPLARIKKIMKADEDVRMISA----- 82 (206)
Q Consensus 14 ~~~~~~~~~~~~~~~~~~~~~----~~qq~L~~FW~~q~~eiE~~~--d~k~~~LPLARIKKIMKsDpDV~mISa----- 82 (206)
..|-.|.++.-.+.+|...++ .+.+.|..||.+.++++|... .+|.|.||||||||+||.|+||+|||+
T Consensus 56 ~~h~~a~~p~e~~~~f~nv~qglvg~~~e~i~ryWq~ti~~~e~~~q~~~k~h~LPlARIkkvMKtdedVkMisaEaPvl 135 (286)
T COG5208 56 VNHYNASAPIEVASPFINVMQGLVGLLDERISRYWQQTIKAAEEERQILLKDHNLPLARIKKVMKTDEDVKMISAEAPVL 135 (286)
T ss_pred ccccccCCchhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHhHHHHHHhccCcHHHHHHHHhcccchhheecccchH
Confidence 344456666777788888777 468899999999999998764 779999999999999999999999998
Q ss_pred --------------------hhhccccccHHHHHHHHhcCCcccchhhccCCccch
Q 028625 83 --------------------EENKRRTLQKNDIAAAITRTDIFDFLVDIVPRDEIK 118 (206)
Q Consensus 83 --------------------e~~kRkTLqy~DIA~AV~~~d~fDFL~DIVP~~~~k 118 (206)
+++|||||+++||++||++++.||||+||||+....
T Consensus 136 Fak~~EiFI~ELTmRAW~~ae~NkRRtLQksDia~Av~kSeMfDFLidivpr~p~n 191 (286)
T COG5208 136 FAKITEIFIEELTMRAWINAEENKRRTLQKSDIAAAVKKSEMFDFLIDIVPRNPFN 191 (286)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHhhhhHHHHHHHHHHHHHHHHHhHHhhhccCCCcc
Confidence 689999999999999999999999999999998543
No 3
>KOG1659 consensus Class 2 transcription repressor NC2, alpha subunit (DRAP1) [Transcription]
Probab=99.32 E-value=5.8e-13 Score=116.02 Aligned_cols=61 Identities=30% Similarity=0.503 Sum_probs=53.7
Q ss_pred ccCCCCCCHHHHHHHHhhCcccchhhh-------------------------hhhccccccHHHHHHHHhcCCcccchhh
Q 028625 56 DFKNHQLPLARIKKIMKADEDVRMISA-------------------------EENKRRTLQKNDIAAAITRTDIFDFLVD 110 (206)
Q Consensus 56 d~k~~~LPLARIKKIMKsDpDV~mISa-------------------------e~~kRkTLqy~DIA~AV~~~d~fDFL~D 110 (206)
++.+.+||.+||||||++|+||++|++ .....|||+..||..||.+++.||||.|
T Consensus 8 ~~~~trfp~aRiKKIMQ~dEdIGKvaqavPViisralElFl~~l~~~t~~~t~~~~aKt~s~~hlkq~v~~~~~FdFLk~ 87 (224)
T KOG1659|consen 8 KKYKTRFPPARIKKIMQSDEDIGKVAQAVPVIISRALELFLESLLQKTLEITRSRGAKTVSSSHLKQAVESDPKFDFLKE 87 (224)
T ss_pred hhhhccCCHHHHHHHHhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhcCccccCHHHHHHHHhccchhHHHHH
Confidence 456788999999999999999999987 2466799999999999999999999999
Q ss_pred ccCCcc
Q 028625 111 IVPRDE 116 (206)
Q Consensus 111 IVP~~~ 116 (206)
+|-+..
T Consensus 88 ~v~~vp 93 (224)
T KOG1659|consen 88 VVEKVP 93 (224)
T ss_pred HHHhcC
Confidence 875543
No 4
>COG5247 BUR6 Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription]
Probab=99.22 E-value=3.4e-12 Score=101.04 Aligned_cols=59 Identities=27% Similarity=0.505 Sum_probs=50.6
Q ss_pred CCCCCCHHHHHHHHhhCcccchhhh-------------------------hhhccccccHHHHHHHHhcCCcccchhhcc
Q 028625 58 KNHQLPLARIKKIMKADEDVRMISA-------------------------EENKRRTLQKNDIAAAITRTDIFDFLVDIV 112 (206)
Q Consensus 58 k~~~LPLARIKKIMKsDpDV~mISa-------------------------e~~kRkTLqy~DIA~AV~~~d~fDFL~DIV 112 (206)
+.++||+|||||||++|+||++|++ .....+.++-++|..||.++++||||.|++
T Consensus 20 ~ktrFP~ar~KkIMQ~deDiGKV~q~tPVIaskalE~Fl~~iv~~s~k~aR~~~skR~t~e~lk~a~~sdekFdFL~~~~ 99 (113)
T COG5247 20 KKTRFPIARLKKIMQLDEDIGKVGQSTPVIASKALEMFLTEIVGLSLKEARKKSSKRMTSEFLKRATESDEKFDFLKNME 99 (113)
T ss_pred hhhcCCHHHHHHHHHhhhhhhhhhhcchHHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHhhhHHHHHHHHHH
Confidence 4568999999999999999999987 123457789999999999999999999998
Q ss_pred CCcc
Q 028625 113 PRDE 116 (206)
Q Consensus 113 P~~~ 116 (206)
-.+.
T Consensus 100 ~~~~ 103 (113)
T COG5247 100 QFKN 103 (113)
T ss_pred HhcC
Confidence 6553
No 5
>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=99.05 E-value=1.5e-10 Score=81.57 Aligned_cols=39 Identities=49% Similarity=0.791 Sum_probs=33.3
Q ss_pred CCCHHHHHHHHhhCcccchhhh-------------------------hhhccccccHHHHHHHH
Q 028625 61 QLPLARIKKIMKADEDVRMISA-------------------------EENKRRTLQKNDIAAAI 99 (206)
Q Consensus 61 ~LPLARIKKIMKsDpDV~mISa-------------------------e~~kRkTLqy~DIA~AV 99 (206)
.||++|||||||.||++..||+ ..++||||+++||..||
T Consensus 2 ~lP~a~vkri~k~~~~~~~vs~ea~~~i~~a~e~Fi~~l~~~A~~~a~~~~rkti~~~Dv~~Av 65 (65)
T PF00808_consen 2 SLPLARVKRIMKSDPDVMRVSKEAVEAIAKAAEEFIQYLAKEANEIAQRDKRKTITYEDVAKAV 65 (65)
T ss_dssp SS-HHHHHHHHHHTSTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEE-HHHHHHHH
T ss_pred CCChHHHHHHhccCCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHC
Confidence 6999999999999999999987 36889999999999986
No 6
>KOG1658 consensus DNA polymerase epsilon, subunit C [Replication, recombination and repair]
Probab=98.42 E-value=4.2e-08 Score=82.43 Aligned_cols=59 Identities=36% Similarity=0.531 Sum_probs=52.1
Q ss_pred cCCCCCCHHHHHHHHhhCcccchhhh-------------------------hhhccccccHHHHHHHHhcCCcccchhhc
Q 028625 57 FKNHQLPLARIKKIMKADEDVRMISA-------------------------EENKRRTLQKNDIAAAITRTDIFDFLVDI 111 (206)
Q Consensus 57 ~k~~~LPLARIKKIMKsDpDV~mISa-------------------------e~~kRkTLqy~DIA~AV~~~d~fDFL~DI 111 (206)
-+.++|||+|||+|||.|||+.|... ...||+|+++.|+..||+..+.|.||.+.
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 45789999999999999999998643 46899999999999999999999999987
Q ss_pred cCCc
Q 028625 112 VPRD 115 (206)
Q Consensus 112 VP~~ 115 (206)
++-.
T Consensus 135 ~d~~ 138 (162)
T KOG1658|consen 135 LDTA 138 (162)
T ss_pred cccC
Confidence 6643
No 7
>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]
Probab=97.55 E-value=4.3e-05 Score=62.35 Aligned_cols=52 Identities=21% Similarity=0.394 Sum_probs=43.9
Q ss_pred CCCCCHHHHHHHHhhCcccchhhh-------------------------hhhccccccHHHHHHHHhcCCcccchhh
Q 028625 59 NHQLPLARIKKIMKADEDVRMISA-------------------------EENKRRTLQKNDIAAAITRTDIFDFLVD 110 (206)
Q Consensus 59 ~~~LPLARIKKIMKsDpDV~mISa-------------------------e~~kRkTLqy~DIA~AV~~~d~fDFL~D 110 (206)
.+.||+.|||||||-+-.-+-|++ ..+|.+.|..+||..||+.++.++||..
T Consensus 24 gl~fpvgrvkr~lk~~~~~~Rig~~A~Vyl~AvleYL~aEilelAgNaA~d~kkkri~PrHlqlAIrnD~EL~~l~~ 100 (132)
T COG5262 24 GLIFPVGRVKRLLKKGNYRMRIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIPRHLQLAIRNDEELNKLLG 100 (132)
T ss_pred CccccHHHHHHHHHcCccceeecCCcHHHHHHHHHHHHHHHHHHhhhhhhhcCcceechHHHHHHhcCcHHHHHHhh
Confidence 568999999999996655555544 3578899999999999999999999986
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=97.42 E-value=0.0001 Score=58.97 Aligned_cols=52 Identities=19% Similarity=0.417 Sum_probs=42.6
Q ss_pred CCCCCHHHHHHHHhhCcccchhhh-------------------------hhhccccccHHHHHHHHhcCCcccchhh
Q 028625 59 NHQLPLARIKKIMKADEDVRMISA-------------------------EENKRRTLQKNDIAAAITRTDIFDFLVD 110 (206)
Q Consensus 59 ~~~LPLARIKKIMKsDpDV~mISa-------------------------e~~kRkTLqy~DIA~AV~~~d~fDFL~D 110 (206)
.+.||++||+|+||..---.-|++ ...||++|+.+||..||.+++.|++|..
T Consensus 18 gL~fPV~ri~R~Lk~~~~a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lAi~nD~EL~~L~~ 94 (115)
T cd00074 18 GLQFPVGRIHRYLKKGRYAERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLAVRNDEELNKLLK 94 (115)
T ss_pred CccCcHHHHHHHHHcCccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHHHhccHHHHHHHc
Confidence 578999999999997544444443 3578999999999999999999997764
No 9
>smart00414 H2A Histone 2A.
Probab=96.48 E-value=0.0018 Score=51.18 Aligned_cols=52 Identities=21% Similarity=0.466 Sum_probs=42.1
Q ss_pred CCCCCHHHHHHHHhhCcccchhhh-------------------------hhhccccccHHHHHHHHhcCCcccchhh
Q 028625 59 NHQLPLARIKKIMKADEDVRMISA-------------------------EENKRRTLQKNDIAAAITRTDIFDFLVD 110 (206)
Q Consensus 59 ~~~LPLARIKKIMKsDpDV~mISa-------------------------e~~kRkTLqy~DIA~AV~~~d~fDFL~D 110 (206)
.+.||++||.|+||..--...|++ ..+|++.|+..||..||.+++.|+.|..
T Consensus 7 gL~fPVgRi~r~Lk~~~~~~Rv~~~A~VyLaAvLEYLtaEILeLagn~a~~~k~~rItp~hi~lAi~nD~EL~~L~~ 83 (106)
T smart00414 7 GLQFPVGRIHRLLRKGTYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLAIRNDEELNKLLK 83 (106)
T ss_pred CccCchHHHHHHHHcCccccccccccHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccchHHHhhhccCCHHHHHHHc
Confidence 578999999999998654555544 2467889999999999999999986553
No 10
>KOG1756 consensus Histone 2A [Chromatin structure and dynamics]
Probab=96.39 E-value=0.0024 Score=52.54 Aligned_cols=52 Identities=19% Similarity=0.427 Sum_probs=44.4
Q ss_pred CCCCCHHHHHHHHhhCcccchhhh-------------------------hhhccccccHHHHHHHHhcCCcccchhh
Q 028625 59 NHQLPLARIKKIMKADEDVRMISA-------------------------EENKRRTLQKNDIAAAITRTDIFDFLVD 110 (206)
Q Consensus 59 ~~~LPLARIKKIMKsDpDV~mISa-------------------------e~~kRkTLqy~DIA~AV~~~d~fDFL~D 110 (206)
.+.||+.||.|+||...-..-|++ ..+++..|..+||..||++++.+.||.+
T Consensus 25 gl~fPvgri~r~Lr~~~~~~ri~~gapV~laavLeYL~Aeile~agnaardnkk~ri~PrH~~lAI~NDeEL~~lL~ 101 (131)
T KOG1756|consen 25 GLQFPVGRIHRLLRKGRYAQRVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRITPRHLQLAIRNDEELNKLLG 101 (131)
T ss_pred ccccCHHHHHHHHHccchhhhccCCChHHHHHHHHHHHHHHHHHhHHHhhhcCccccChHHHHHHHhCcHHHHHHhc
Confidence 578999999999998555555544 3678999999999999999999999987
No 11
>KOG0869 consensus CCAAT-binding factor, subunit A (HAP3) [Transcription]
Probab=96.05 E-value=0.0061 Score=51.92 Aligned_cols=44 Identities=30% Similarity=0.463 Sum_probs=35.9
Q ss_pred CCCCHHHHHHHHhhC-cccchhhh-------------------------hhhccccccHHHHHHHHhcCC
Q 028625 60 HQLPLARIKKIMKAD-EDVRMISA-------------------------EENKRRTLQKNDIAAAITRTD 103 (206)
Q Consensus 60 ~~LPLARIKKIMKsD-pDV~mISa-------------------------e~~kRkTLqy~DIA~AV~~~d 103 (206)
.-||||.|-||||.- |.-.+||. .+.|||||+-+||-.|+..-.
T Consensus 31 r~LPIANV~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~tLG 100 (168)
T KOG0869|consen 31 RFLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMSTLG 100 (168)
T ss_pred hhccHHHHHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHHHcC
Confidence 459999999999974 55566665 368999999999999998653
No 12
>PLN00154 histone H2A; Provisional
Probab=95.95 E-value=0.004 Score=51.54 Aligned_cols=52 Identities=21% Similarity=0.347 Sum_probs=42.1
Q ss_pred CCCCCHHHHHHHHhhCc-ccchhhh-------------------------hhhccccccHHHHHHHHhcCCcccchhh
Q 028625 59 NHQLPLARIKKIMKADE-DVRMISA-------------------------EENKRRTLQKNDIAAAITRTDIFDFLVD 110 (206)
Q Consensus 59 ~~~LPLARIKKIMKsDp-DV~mISa-------------------------e~~kRkTLqy~DIA~AV~~~d~fDFL~D 110 (206)
.+.||++||.++||..- --..|++ ..+|++.|+..||..||.+++.|++|..
T Consensus 36 gL~FPVgRi~r~Lk~g~~~~~RVga~ApVYLAAVLEYLtAEVLELAGNaA~d~kk~RItPrHi~lAIrnDeEL~~Ll~ 113 (136)
T PLN00154 36 GLQFPVGRIHRQLKQRVSAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIK 113 (136)
T ss_pred CccCchHHHHHHHHhhhhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhCCceecHHHhhhhccCcHHHHHHhc
Confidence 58899999999999864 2234433 2577889999999999999999998764
No 13
>PTZ00017 histone H2A; Provisional
Probab=95.87 E-value=0.0051 Score=50.77 Aligned_cols=51 Identities=22% Similarity=0.449 Sum_probs=41.4
Q ss_pred CCCCCHHHHHHHHhhCcccchhhh-------------------------hhhccccccHHHHHHHHhcCCcccchh
Q 028625 59 NHQLPLARIKKIMKADEDVRMISA-------------------------EENKRRTLQKNDIAAAITRTDIFDFLV 109 (206)
Q Consensus 59 ~~~LPLARIKKIMKsDpDV~mISa-------------------------e~~kRkTLqy~DIA~AV~~~d~fDFL~ 109 (206)
.+.||+.||.|+||..---..|++ ..+|++.|+..||..||.+++.|+.|.
T Consensus 25 gL~FPVgRi~R~Lk~g~~a~RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk~RItPrHi~lAI~nDeEL~~Ll 100 (134)
T PTZ00017 25 GLQFPVGRVHRYLKKGRYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKRITPRHIQLAIRNDEELNKLL 100 (134)
T ss_pred CcccchHHHHHHHhccchhccccccchhhhHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHhhccCcHHHHHHH
Confidence 578999999999997533344443 256788999999999999999999776
No 14
>PLN00156 histone H2AX; Provisional
Probab=94.51 E-value=0.023 Score=47.30 Aligned_cols=51 Identities=24% Similarity=0.421 Sum_probs=40.1
Q ss_pred CCCCCHHHHHHHHhhCcccchhhh-------------------------hhhccccccHHHHHHHHhcCCcccchh
Q 028625 59 NHQLPLARIKKIMKADEDVRMISA-------------------------EENKRRTLQKNDIAAAITRTDIFDFLV 109 (206)
Q Consensus 59 ~~~LPLARIKKIMKsDpDV~mISa-------------------------e~~kRkTLqy~DIA~AV~~~d~fDFL~ 109 (206)
.+.||+.||.|.||.----.-|++ ..+|++.|+.+||..||.+++.|+.|.
T Consensus 27 gL~FPVgRi~R~Lk~g~ya~RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~RItPrHi~lAIrnDeEL~~Ll 102 (139)
T PLN00156 27 GLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRNDEELSKLL 102 (139)
T ss_pred CcccchHHHHHHHhcCChhhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHhhccCcHHHHHHH
Confidence 578999999999987432233333 257889999999999999999998554
No 15
>PLN00153 histone H2A; Provisional
Probab=94.31 E-value=0.024 Score=46.57 Aligned_cols=51 Identities=25% Similarity=0.401 Sum_probs=40.4
Q ss_pred CCCCCHHHHHHHHhhCcccchhhh-------------------------hhhccccccHHHHHHHHhcCCcccchh
Q 028625 59 NHQLPLARIKKIMKADEDVRMISA-------------------------EENKRRTLQKNDIAAAITRTDIFDFLV 109 (206)
Q Consensus 59 ~~~LPLARIKKIMKsDpDV~mISa-------------------------e~~kRkTLqy~DIA~AV~~~d~fDFL~ 109 (206)
.+.||+.||.|.||.----.-|++ ..+|++.|+..||..||.+++.|+.|.
T Consensus 22 gL~FpVgRi~R~Lr~g~~a~Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~nDeEL~~Ll 97 (129)
T PLN00153 22 GLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIVPRHIQLAIRNDEELGKLL 97 (129)
T ss_pred CcccchHHHHHHHhcCchhhccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccChHHHHhhccCcHHHHHHH
Confidence 578999999999987433333433 257889999999999999999998554
No 16
>PLN00157 histone H2A; Provisional
Probab=94.09 E-value=0.028 Score=46.37 Aligned_cols=51 Identities=24% Similarity=0.402 Sum_probs=39.9
Q ss_pred CCCCCHHHHHHHHhhCcccchhhh-------------------------hhhccccccHHHHHHHHhcCCcccchh
Q 028625 59 NHQLPLARIKKIMKADEDVRMISA-------------------------EENKRRTLQKNDIAAAITRTDIFDFLV 109 (206)
Q Consensus 59 ~~~LPLARIKKIMKsDpDV~mISa-------------------------e~~kRkTLqy~DIA~AV~~~d~fDFL~ 109 (206)
.+.||+.||.|.||.----.-|++ ..+|++.|+..||..||.+++.|+-|.
T Consensus 24 gL~FPVgRi~R~Lk~g~~a~RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~nDeEL~~Ll 99 (132)
T PLN00157 24 GLQFPVGRIARYLKAGKYATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSRIVPRHIQLAVRNDEELSKLL 99 (132)
T ss_pred CcccchHHHHHHHhcCchhhhcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHhhcccCcHHHHHHH
Confidence 578999999999987432233433 257889999999999999999998443
No 17
>PTZ00252 histone H2A; Provisional
Probab=93.33 E-value=0.05 Score=45.06 Aligned_cols=52 Identities=19% Similarity=0.380 Sum_probs=40.2
Q ss_pred CCCCCHHHHHHHHhhCcccchhhh-------------------------h--hhccccccHHHHHHHHhcCCccc-chhh
Q 028625 59 NHQLPLARIKKIMKADEDVRMISA-------------------------E--ENKRRTLQKNDIAAAITRTDIFD-FLVD 110 (206)
Q Consensus 59 ~~~LPLARIKKIMKsDpDV~mISa-------------------------e--~~kRkTLqy~DIA~AV~~~d~fD-FL~D 110 (206)
.+.||+.||.|.||.----.-|++ . .+|++.|+..||..||.+++.|+ +|.+
T Consensus 23 GL~FPVgRi~R~Lr~g~ya~RIga~ApVYLAAVLEYLtaEVLELAgnaa~d~~~kk~RItPrHi~lAIrNDeEL~~Ll~~ 102 (134)
T PTZ00252 23 GLIFPVGRVGSLLRRGQYARRIGASGAVYMAAVLEYLTAELLELSVKAAAQQAKKPKRLTPRTVTLAVRHDDDLGSLLKN 102 (134)
T ss_pred CccCchHHHHHHHHcCCcccccCCccHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccccHHHHHhhccChHHHHHHHcC
Confidence 578999999999987533334433 0 25788999999999999999998 5555
No 18
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Probab=92.38 E-value=0.16 Score=39.36 Aligned_cols=54 Identities=28% Similarity=0.458 Sum_probs=39.7
Q ss_pred HHHHhhcccCCCCCCHHHHHHHHhhCcccchhhh-------------------------hhhccccccHHHHHHHHhcCC
Q 028625 49 QEIEQANDFKNHQLPLARIKKIMKADEDVRMISA-------------------------EENKRRTLQKNDIAAAITRTD 103 (206)
Q Consensus 49 ~eiE~~~d~k~~~LPLARIKKIMKsDpDV~mISa-------------------------e~~kRkTLqy~DIA~AV~~~d 103 (206)
.|+..........||.+-|.||||.--. ..||. ...|||||+.+||.-|++.-.
T Consensus 7 ~~~r~~~~~~~~~Lp~apv~Ri~r~~~~-~Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI~la~~~~~ 85 (91)
T COG2036 7 KEIRRYQRSTDLLLPKAPVRRILRKAGA-ERVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDIKLALKRLG 85 (91)
T ss_pred HHHHhhhhhhhhhcCchHHHHHHHHHhH-HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHHHhc
Confidence 4455555555667999999999998422 15554 367999999999999987643
No 19
>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=91.61 E-value=0.12 Score=36.59 Aligned_cols=44 Identities=23% Similarity=0.339 Sum_probs=33.8
Q ss_pred CCCCCCHHHHHHHHhhCcccc-hhhh-------------------------hhhccccccHHHHHHHHhc
Q 028625 58 KNHQLPLARIKKIMKADEDVR-MISA-------------------------EENKRRTLQKNDIAAAITR 101 (206)
Q Consensus 58 k~~~LPLARIKKIMKsDpDV~-mISa-------------------------e~~kRkTLqy~DIA~AV~~ 101 (206)
....+|+.||.|-+..+-... .||+ ..+||+||+.+||..|+..
T Consensus 5 ~~~~~~~~r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~tI~~~DI~~A~r~ 74 (75)
T PF00125_consen 5 LIPKFPFSRLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRKTITPRDIQLAVRI 74 (75)
T ss_dssp SSSHHHHHHHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBSEEGHHHHHHHHHH
T ss_pred ccCceEEeeeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCcEecHHHHHHHHhc
Confidence 456789999999999884432 4443 3689999999999999864
No 20
>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=90.17 E-value=0.45 Score=34.35 Aligned_cols=39 Identities=31% Similarity=0.438 Sum_probs=30.4
Q ss_pred CCCHHHHHHHHhhCcccchhhh-------------------------hhhccccccHHHHHHHHh
Q 028625 61 QLPLARIKKIMKADEDVRMISA-------------------------EENKRRTLQKNDIAAAIT 100 (206)
Q Consensus 61 ~LPLARIKKIMKsDpDV~mISa-------------------------e~~kRkTLqy~DIA~AV~ 100 (206)
.||.+-||+|.++- +|..||. +..|||||+-+||..|++
T Consensus 2 ~~p~~~i~ria~~~-Gi~ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~Alk 65 (65)
T smart00803 2 WLPKETIKDVAESL-GIGNLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSALR 65 (65)
T ss_pred CCCHHHHHHHHHHC-CCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHHhC
Confidence 58999999999975 3444443 367999999999998864
No 21
>cd00076 H4 Histone H4, one of the four histones, along with H2A, H2B and H3, which forms the eukaryotic nucleosome core; along with H3, it plays a central role in nucleosome formation; histones bind to DNA and wrap the genetic material into "beads on a string" in which DNA (the string) is wrapped around small blobs of histones (the beads) at regular intervals; play a role in the inheritance of specialized chromosome structures and the control of gene activity; defects in the establishment of proper chromosome structure by histones may activate or silence genes aberrantly and thus lead to disease; the sequence of histone H4 has remained almost invariant in more than 2 billion years of evolution
Probab=88.70 E-value=0.69 Score=35.42 Aligned_cols=41 Identities=27% Similarity=0.457 Sum_probs=34.8
Q ss_pred CCCHHHHHHHHhhCcccchhhh-------------------------hhhccccccHHHHHHHHhcC
Q 028625 61 QLPLARIKKIMKADEDVRMISA-------------------------EENKRRTLQKNDIAAAITRT 102 (206)
Q Consensus 61 ~LPLARIKKIMKsDpDV~mISa-------------------------e~~kRkTLqy~DIA~AV~~~ 102 (206)
.||.+-|+||.+.. .|+-||. +-.+||||+..||..|+++.
T Consensus 13 gi~k~~I~RLarr~-GvkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr~ 78 (85)
T cd00076 13 GITKPAIRRLARRG-GVKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKRQ 78 (85)
T ss_pred cCCHHHHHHHHHHc-CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHC
Confidence 39999999999976 4777775 46799999999999999865
No 22
>PLN00035 histone H4; Provisional
Probab=83.56 E-value=1.8 Score=34.37 Aligned_cols=41 Identities=24% Similarity=0.462 Sum_probs=34.3
Q ss_pred CCHHHHHHHHhhCcccchhhh-------------------------hhhccccccHHHHHHHHhcCC
Q 028625 62 LPLARIKKIMKADEDVRMISA-------------------------EENKRRTLQKNDIAAAITRTD 103 (206)
Q Consensus 62 LPLARIKKIMKsDpDV~mISa-------------------------e~~kRkTLqy~DIA~AV~~~d 103 (206)
||.+-|+||.+.- .|+-||. +..+||||+-.||..|+++..
T Consensus 30 ipk~~IrRLARr~-GvkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA~RKTV~~~DV~~Alkr~g 95 (103)
T PLN00035 30 ITKPAIRRLARRG-GVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQG 95 (103)
T ss_pred CCHHHHHHHHHHc-CcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHcC
Confidence 9999999999975 4777765 457899999999999998653
No 23
>PTZ00015 histone H4; Provisional
Probab=81.92 E-value=2.1 Score=33.94 Aligned_cols=43 Identities=23% Similarity=0.415 Sum_probs=34.6
Q ss_pred CCCCHHHHHHHHhhCcccchhhh-------------------------hhhccccccHHHHHHHHhcCC
Q 028625 60 HQLPLARIKKIMKADEDVRMISA-------------------------EENKRRTLQKNDIAAAITRTD 103 (206)
Q Consensus 60 ~~LPLARIKKIMKsDpDV~mISa-------------------------e~~kRkTLqy~DIA~AV~~~d 103 (206)
.-||.+-|+||.+.. .|+-||. +..+||||+-.||.-|+++..
T Consensus 29 ~gI~k~~IrRLarr~-GvkRIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt~~DV~~AlKr~g 96 (102)
T PTZ00015 29 RGITKGAIRRLARRG-GVKRISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVTAMDVVYALKRQG 96 (102)
T ss_pred cCCCHHHHHHHHHHc-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHhcC
Confidence 358899999999965 5666665 467999999999999997653
No 24
>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=78.19 E-value=2.8 Score=35.73 Aligned_cols=52 Identities=23% Similarity=0.485 Sum_probs=39.2
Q ss_pred CCCCCHHHHHHHHhh--Ccccch------------------hhh------hhhccccccHHHHHHHHhcCCcccchhh
Q 028625 59 NHQLPLARIKKIMKA--DEDVRM------------------ISA------EENKRRTLQKNDIAAAITRTDIFDFLVD 110 (206)
Q Consensus 59 ~~~LPLARIKKIMKs--DpDV~m------------------ISa------e~~kRkTLqy~DIA~AV~~~d~fDFL~D 110 (206)
...||-|-|.||+|. ..||+. ||+ +..++|||.+.||-+|+.+-.-=+|+..
T Consensus 10 e~sLPkAtv~KmIke~lP~d~rvakeareliincCvEFI~liSsEAneic~~e~KKTIa~EHV~KALe~LgF~eYiee 87 (156)
T KOG0871|consen 10 ELSLPKATVNKMIKEMLPKDVRVAKEARELIINCCVEFINLISSEANEICNKEAKKTIAPEHVIKALENLGFGEYIEE 87 (156)
T ss_pred cccCcHHHHHHHHHHhCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcccCCHHHHHHHHHHcchHHHHHH
Confidence 578999999999997 446653 333 3567899999999999987655455543
No 25
>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=76.01 E-value=2.9 Score=31.82 Aligned_cols=52 Identities=21% Similarity=0.362 Sum_probs=36.1
Q ss_pred HHHhhcccCCCCCCHHHHHHHHhhCcc------cchh-hh------------------hhhc--cccccHHHHHHHHhc
Q 028625 50 EIEQANDFKNHQLPLARIKKIMKADED------VRMI-SA------------------EENK--RRTLQKNDIAAAITR 101 (206)
Q Consensus 50 eiE~~~d~k~~~LPLARIKKIMKsDpD------V~mI-Sa------------------e~~k--RkTLqy~DIA~AV~~ 101 (206)
+.+....|+...||-+.|||||...-+ |.++ +. +.+. +.-|+.+||.+|..+
T Consensus 5 Q~~Rye~~Rra~f~k~~iKr~~~~~~~~~v~~~v~i~v~glaKvFVGeivE~A~~V~~~~~~~~~~Pl~P~HireA~rr 83 (85)
T cd08048 5 QMNRYEMFRRSSFPKAAIKRLIQSVTGQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGEANTGPLQPRHLREAYRR 83 (85)
T ss_pred HHHHHHHHHHhhccHHHHHHHHHHHcCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCCcHHHHHHHHH
Confidence 345556677778999999999988543 2221 11 1223 788999999999865
No 26
>KOG1658 consensus DNA polymerase epsilon, subunit C [Replication, recombination and repair]
Probab=74.46 E-value=2.6 Score=36.05 Aligned_cols=56 Identities=21% Similarity=0.236 Sum_probs=38.0
Q ss_pred cCCCCCCHHHHHHHHhhCcccchhhh----------hh----------hccccccHHHHHHHHhcCCcccchhhcc
Q 028625 57 FKNHQLPLARIKKIMKADEDVRMISA----------EE----------NKRRTLQKNDIAAAITRTDIFDFLVDIV 112 (206)
Q Consensus 57 ~k~~~LPLARIKKIMKsDpDV~mISa----------e~----------~kRkTLqy~DIA~AV~~~d~fDFL~DIV 112 (206)
.+...||++.+|||-|.||...+.+. +. .+-..|...-|..+|+..+.|.||.|-+
T Consensus 7 e~~p~~p~ekvkkiak~dPey~~te~~a~~etafatE~fvq~lv~~p~a~l~rLpL~rik~vvkl~pdl~l~~dea 82 (162)
T KOG1658|consen 7 ECSPKLPMEKVKKIAKNDPEYMDTEDDAFVETAFATEQFVQVLVHLPQASLSRLPLARIKQVVKLDPDLTLLNDEA 82 (162)
T ss_pred hhCccccHHHHHHhhcCCchhhhcccchHHHHHHHHHHHHhhhhhhhhhhhhhccHHHHHhhccCCcchhhhhhHH
Confidence 45678999999999999999866543 11 2223455566666777777776666543
No 27
>smart00417 H4 Histone H4.
Probab=74.20 E-value=3.8 Score=30.71 Aligned_cols=35 Identities=23% Similarity=0.456 Sum_probs=28.6
Q ss_pred CCCHHHHHHHHhhCcccchhhh-------------------------hhhccccccHHHHH
Q 028625 61 QLPLARIKKIMKADEDVRMISA-------------------------EENKRRTLQKNDIA 96 (206)
Q Consensus 61 ~LPLARIKKIMKsDpDV~mISa-------------------------e~~kRkTLqy~DIA 96 (206)
-||.+-|+||.|-. .|+-||. +-.+||||+..||.
T Consensus 13 gI~k~~IrRLaRr~-GvkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~ 72 (74)
T smart00417 13 GITKPAIRRLARRG-GVKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVV 72 (74)
T ss_pred CCCHHHHHHHHHHc-CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHhe
Confidence 48999999999965 6777775 46789999999985
No 28
>KOG1757 consensus Histone 2A [Chromatin structure and dynamics]
Probab=67.47 E-value=2.6 Score=34.65 Aligned_cols=51 Identities=24% Similarity=0.383 Sum_probs=39.8
Q ss_pred CCCCCHHHHHHHHhhC----cccchhhh----------------------hhhccccccHHHHHHHHhcCCcccchh
Q 028625 59 NHQLPLARIKKIMKAD----EDVRMISA----------------------EENKRRTLQKNDIAAAITRTDIFDFLV 109 (206)
Q Consensus 59 ~~~LPLARIKKIMKsD----pDV~mISa----------------------e~~kRkTLqy~DIA~AV~~~d~fDFL~ 109 (206)
.+.||+.||+|-.|.- --|+-.++ ..-|-|.|+..||.-||.-++.+|-|+
T Consensus 28 GlqFpVgRihr~LK~r~t~h~rVGataavy~aaileYLTaEVLeLAgNasKdLKvKRitprHlqLAiRGDeELDtLI 104 (131)
T KOG1757|consen 28 GLQFPVGRIHRHLKTRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLI 104 (131)
T ss_pred ccccchHHHHHHHHHhcccccccchHHHHHHHHHHHHHHHHHHHHcccccccceeeeccchhheeeecCcHHHHHHH
Confidence 5789999999999974 23333332 134678899999999999999999987
No 29
>KOG3219 consensus Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=67.04 E-value=6.3 Score=34.68 Aligned_cols=62 Identities=31% Similarity=0.386 Sum_probs=42.5
Q ss_pred HHHHHHHHHHHHHHHhhcccCCCCCCHHHHHHHHhh------Ccccchhhh-------------------hhhccccccH
Q 028625 38 QQLQMFWSYQRQEIEQANDFKNHQLPLARIKKIMKA------DEDVRMISA-------------------EENKRRTLQK 92 (206)
Q Consensus 38 q~L~~FW~~q~~eiE~~~d~k~~~LPLARIKKIMKs------DpDV~mISa-------------------e~~kRkTLqy 92 (206)
--|..|=..| ++....|+-..||-+.|||+|.. ++.|.+.-+ +..+..-|+.
T Consensus 92 ~L~s~fseEQ---l~RYEvfRrs~f~Ka~iKkL~~~itg~~v~~nv~Ia~~GiaKvFVGEvVEeAl~V~~~~~e~~PLqP 168 (195)
T KOG3219|consen 92 TLLSNFSEEQ---LSRYEVFRRSAFPKAQIKKLMSSITGQSVSENVAIAMAGIAKVFVGEVVEEALDVREEWGESGPLQP 168 (195)
T ss_pred HHHHhcCHHH---HHHHHHHHHhcCCHHHHHHHHHHHhCCccCcceeeeecchhhHhHHHHHHHHHHHHHHhccCCCCCc
Confidence 3444454433 56667788889999999999986 344433222 2344678999
Q ss_pred HHHHHHHhcC
Q 028625 93 NDIAAAITRT 102 (206)
Q Consensus 93 ~DIA~AV~~~ 102 (206)
+||..|+.+.
T Consensus 169 ~HIREA~rrL 178 (195)
T KOG3219|consen 169 KHIREAYRRL 178 (195)
T ss_pred HHHHHHHHHH
Confidence 9999999764
No 30
>KOG0870 consensus DNA polymerase epsilon, subunit D [Transcription]
Probab=60.24 E-value=10 Score=32.82 Aligned_cols=51 Identities=25% Similarity=0.435 Sum_probs=38.3
Q ss_pred CCCCCHHHHHHHHhhC-ccc-chhhh-------------------------hhhccccccHHHHHHHHhcCCcccchh
Q 028625 59 NHQLPLARIKKIMKAD-EDV-RMISA-------------------------EENKRRTLQKNDIAAAITRTDIFDFLV 109 (206)
Q Consensus 59 ~~~LPLARIKKIMKsD-pDV-~mISa-------------------------e~~kRkTLqy~DIA~AV~~~d~fDFL~ 109 (206)
.+.||.|-|.||+|-- |+- ..||. ...+||||..+||-.|+...+--.|+.
T Consensus 8 dl~lP~AiI~rlvke~l~E~~vsisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~sadDVl~aL~Eiefs~f~~ 85 (172)
T KOG0870|consen 8 DLNLPNAIITRLVKEVLPESNVSISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALDEIEFSSFVN 85 (172)
T ss_pred HhhccHHHHHHHHHHhCccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHHHhchHHHhh
Confidence 3569999999998863 222 23332 367899999999999999888777764
No 31
>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=58.95 E-value=8 Score=29.93 Aligned_cols=51 Identities=22% Similarity=0.307 Sum_probs=26.5
Q ss_pred HHhhcccCCCCCCHHHHHHHHhhCcccchhhh--------------------------hhhccccccHHHHHHHHhc
Q 028625 51 IEQANDFKNHQLPLARIKKIMKADEDVRMISA--------------------------EENKRRTLQKNDIAAAITR 101 (206)
Q Consensus 51 iE~~~d~k~~~LPLARIKKIMKsDpDV~mISa--------------------------e~~kRkTLqy~DIA~AV~~ 101 (206)
++....|+-..||-+.|||||..--+-..|+. +.+...-|+..||.+|..+
T Consensus 13 ~~Rye~fRRs~~~k~~ikkli~~~~~~qsv~~~v~i~v~g~aKvFVGEiVE~A~~Vq~~~~~~~pl~P~hlreA~rr 89 (90)
T PF04719_consen 13 LDRYEAFRRSSFNKAAIKKLINQVLGNQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGETGPLQPDHLREAYRR 89 (90)
T ss_dssp HHHHHHHHH----HHHHHHHHHHHHS-S---HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--SS--HHHHHHHHHH
T ss_pred HHHHHHHHHccCCHHHHHHHHHHHcCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHHh
Confidence 34455566677999999999998333111111 2334458999999998754
No 32
>smart00427 H2B Histone H2B.
Probab=57.09 E-value=14 Score=28.74 Aligned_cols=17 Identities=35% Similarity=0.516 Sum_probs=15.6
Q ss_pred hhccccccHHHHHHHHh
Q 028625 84 ENKRRTLQKNDIAAAIT 100 (206)
Q Consensus 84 ~~kRkTLqy~DIA~AV~ 100 (206)
.+||+||+-++|..||.
T Consensus 49 ~nkr~TltsreIqtAvr 65 (89)
T smart00427 49 YNKKSTLSSREIQTAVR 65 (89)
T ss_pred ccCCCcCCHHHHHHHHH
Confidence 58999999999999986
No 33
>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=46.97 E-value=21 Score=28.40 Aligned_cols=27 Identities=19% Similarity=0.329 Sum_probs=22.5
Q ss_pred hhhccccccHHHHHHHHhcCCcccchh
Q 028625 83 EENKRRTLQKNDIAAAITRTDIFDFLV 109 (206)
Q Consensus 83 e~~kRkTLqy~DIA~AV~~~d~fDFL~ 109 (206)
+-.+|+||+.+||.-||+..-.|.|-.
T Consensus 47 ~hA~r~tV~~eDV~lAi~~r~~~~f~~ 73 (117)
T cd07979 47 EHAGKANIDADDVKLAIQSRVDYSFTS 73 (117)
T ss_pred HHcCCCCCCHHHHHHHHHHHhccCCCC
Confidence 356899999999999998777677764
No 34
>PHA00687 hypothetical protein
Probab=38.83 E-value=13 Score=26.49 Aligned_cols=18 Identities=56% Similarity=0.693 Sum_probs=14.7
Q ss_pred CCCHHHHHHHHhhCcccc
Q 028625 61 QLPLARIKKIMKADEDVR 78 (206)
Q Consensus 61 ~LPLARIKKIMKsDpDV~ 78 (206)
.=||+|||.|-|+.+-|+
T Consensus 30 adplarvkaiekatervk 47 (56)
T PHA00687 30 ADPLARVKAIEKATERVK 47 (56)
T ss_pred cChHHHHHHHHHHHHHHH
Confidence 469999999999877654
No 35
>COG5150 Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=36.41 E-value=36 Score=28.67 Aligned_cols=50 Identities=22% Similarity=0.504 Sum_probs=33.8
Q ss_pred CCCCCHHHHHHHHhhC--ccc------------------chhhh------hhhccccccHHHHHHHHhcCCcccch
Q 028625 59 NHQLPLARIKKIMKAD--EDV------------------RMISA------EENKRRTLQKNDIAAAITRTDIFDFL 108 (206)
Q Consensus 59 ~~~LPLARIKKIMKsD--pDV------------------~mISa------e~~kRkTLqy~DIA~AV~~~d~fDFL 108 (206)
+..||-|-|.|++-+= .|. .|+|+ +..++|||.|.||-+|+++-+-=+|+
T Consensus 9 e~sLPKATVqKMvS~iLp~dl~ftKearei~in~cieFi~~lsseAne~ce~EaKKTIa~EHviKALenLef~eyi 84 (148)
T COG5150 9 ENSLPKATVQKMVSSILPKDLVFTKEAREIFINACIEFINMLSSEANEACEEEAKKTIAYEHVIKALENLEFEEYI 84 (148)
T ss_pred cccCcHHHHHHHHHHhccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHhccHHHHH
Confidence 5678999888877652 221 12222 46678999999999999876544443
No 36
>PLN02720 complex II
Probab=35.54 E-value=52 Score=27.71 Aligned_cols=40 Identities=20% Similarity=0.412 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHhhcccC--CCCCCH---HHHHHHHhhCccc
Q 028625 38 QQLQMFWSYQRQEIEQANDFK--NHQLPL---ARIKKIMKADEDV 77 (206)
Q Consensus 38 q~L~~FW~~q~~eiE~~~d~k--~~~LPL---ARIKKIMKsDpDV 77 (206)
.-+++||+++.+-+++...|- ...||- +-|...|.+||=.
T Consensus 11 ~g~K~~w~e~fs~l~~y~~~~~rdkPLP~Ws~sDVeeFIaSDPVy 55 (140)
T PLN02720 11 EGLKDFWRDRFSFLENYARFSKRDKPLPPWSDSDVDEFIASDPVY 55 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcCCCCCCCCchhhHHHHHhcCCCc
Confidence 568899999988888876653 333443 6666666666644
No 37
>PLN00158 histone H2B; Provisional
Probab=33.00 E-value=54 Score=26.82 Aligned_cols=18 Identities=28% Similarity=0.390 Sum_probs=16.0
Q ss_pred hhccccccHHHHHHHHhc
Q 028625 84 ENKRRTLQKNDIAAAITR 101 (206)
Q Consensus 84 ~~kRkTLqy~DIA~AV~~ 101 (206)
.+||+||+-++|..||.-
T Consensus 75 ~nkr~TltsrEIqtAvrL 92 (116)
T PLN00158 75 YNKKPTVTSREIQTAVRL 92 (116)
T ss_pred ccCCCcCCHHHHHHHHHH
Confidence 589999999999999863
No 38
>PTZ00463 histone H2B; Provisional
Probab=32.11 E-value=55 Score=26.84 Aligned_cols=18 Identities=33% Similarity=0.429 Sum_probs=16.0
Q ss_pred hhccccccHHHHHHHHhc
Q 028625 84 ENKRRTLQKNDIAAAITR 101 (206)
Q Consensus 84 ~~kRkTLqy~DIA~AV~~ 101 (206)
.+||+||+-.+|..||.-
T Consensus 76 ~nkr~TltsrEIQtAvrL 93 (117)
T PTZ00463 76 YTRRDTLSSREIQTAIRL 93 (117)
T ss_pred hcCCCcCCHHHHHHHHhh
Confidence 589999999999999863
No 39
>smart00428 H3 Histone H3.
Probab=31.98 E-value=1.2e+02 Score=24.14 Aligned_cols=52 Identities=29% Similarity=0.405 Sum_probs=33.9
Q ss_pred HHHHHh---hcccCCCCCCHHHH-HHHHhhC-c--ccchhhh------------------------hhhccccccHHHHH
Q 028625 48 RQEIEQ---ANDFKNHQLPLARI-KKIMKAD-E--DVRMISA------------------------EENKRRTLQKNDIA 96 (206)
Q Consensus 48 ~~eiE~---~~d~k~~~LPLARI-KKIMKsD-p--DV~mISa------------------------e~~kRkTLqy~DIA 96 (206)
+.||.. ..++--.++|.+|+ |.|+..- . ++..-+. .-.||.||..+||.
T Consensus 16 LrEIr~yQkst~lLI~k~pF~RLVREI~~~~~~~~~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~~kDi~ 95 (105)
T smart00428 16 LREIRKYQKSTDLLIRKAPFQRLVREIAQKFTTGVDLRFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIMPKDIQ 95 (105)
T ss_pred HHHHHHHccCcccccccccHHHHHHHHHHHcCCCCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCcHhhHH
Confidence 456655 34555678999995 5666542 2 4443222 25799999999997
Q ss_pred HHH
Q 028625 97 AAI 99 (206)
Q Consensus 97 ~AV 99 (206)
-|.
T Consensus 96 La~ 98 (105)
T smart00428 96 LAR 98 (105)
T ss_pred HHH
Confidence 765
No 40
>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=31.11 E-value=98 Score=22.34 Aligned_cols=22 Identities=23% Similarity=0.265 Sum_probs=18.2
Q ss_pred hhhccccccHHHHHHHHhcCCc
Q 028625 83 EENKRRTLQKNDIAAAITRTDI 104 (206)
Q Consensus 83 e~~kRkTLqy~DIA~AV~~~d~ 104 (206)
.-.+|+||..+||.-++++.-.
T Consensus 48 kHr~~~tv~~~Di~l~l~r~~~ 69 (72)
T cd07981 48 KHRKSDTLEVKDVQLHLERNWN 69 (72)
T ss_pred HHcCCCCCCHHHHHHHHHHhcC
Confidence 3578999999999999987643
No 41
>KOG1560 consensus Translation initiation factor 3, subunit h (eIF-3h) [Translation, ribosomal structure and biogenesis]
Probab=30.86 E-value=1.1e+02 Score=29.02 Aligned_cols=39 Identities=21% Similarity=0.213 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHHHHHhhcccCCCCCCHHHHHHHHhhC
Q 028625 36 QQQQLQMFWSYQRQEIEQANDFKNHQLPLARIKKIMKAD 74 (206)
Q Consensus 36 ~qq~L~~FW~~q~~eiE~~~d~k~~~LPLARIKKIMKsD 74 (206)
++.....+-.++..|.++-..-....||+.-||||.|.=
T Consensus 257 qq~~~~q~~aKrqaENa~R~argep~lP~dd~kr~fk~p 295 (339)
T KOG1560|consen 257 QQAKKHQWIAKRQAENANRAARGEPPLPEDDWKRIFKPP 295 (339)
T ss_pred HHHHHHHHHHHHHHHhhhhhhcCCCCCChHHHHHHhcCC
Confidence 344444444455555554444567789999999999974
No 42
>cd07420 MPP_RdgC Drosophila melanogaster RdgC and related proteins, metallophosphatase domain. RdgC (retinal degeneration C) is a vertebrate serine-threonine protein phosphatase that is required to prevent light-induced retinal degeneration. In addition to its catalytic domain, RdgC has two C-terminal EF hands. Homologs of RdgC include the human phosphatases protein phosphatase with EF hands 1 and -2 (PPEF-1 and -2). PPEF-1 transcripts are present at low levels in the retina, PPEF-2 transcripts and PPEF-2 protein are present at high levels in photoreceptors. The PPP (phosphoprotein phosphatase) family, to which RdgC belongs, is one of two known protein phosphatase families specific for serine and threonine. The PPP family also includes: PP1, PP2A, PP2B (calcineurin), PP4, PP5, PP6, PP7, Bsu1, PrpE, PrpA/PrpB, and ApA4 hydrolase. The PPP catalytic domain is defined by three conserved motifs (-GDXHG-, -GDXVDRG- and -GNHE-). The PPP enzyme family is ancient with members found in all
Probab=25.95 E-value=74 Score=29.48 Aligned_cols=52 Identities=19% Similarity=0.312 Sum_probs=36.2
Q ss_pred HHHHHHHhhCcccchhhhhhhccccc------cHHHHHHHHhc------CCcccchhhccCCcc
Q 028625 65 ARIKKIMKADEDVRMISAEENKRRTL------QKNDIAAAITR------TDIFDFLVDIVPRDE 116 (206)
Q Consensus 65 ARIKKIMKsDpDV~mISae~~kRkTL------qy~DIA~AV~~------~d~fDFL~DIVP~~~ 116 (206)
.++++|++.+|.|-.|+....++-.| ++.||.+.++. ++.|=||.|.|.|-.
T Consensus 30 ~~a~~il~~ep~vl~i~~~~~~~~~vvGDiHG~~~dL~~il~~~g~~~~~~~~lFLGDyVDRG~ 93 (321)
T cd07420 30 REARKVLKQLPNISRVSTSISKQVTICGDLHGKLDDLFLIFYKNGLPSPENPYVFNGDFVDRGK 93 (321)
T ss_pred HHHHHHHHhCCCEEEecCCCCCCeEEEEeCCCCHHHHHHHHHHcCCCCccceEEEeccccCCCC
Confidence 46677777788776665433333333 58888888863 357999999999865
No 43
>PLN00155 histone H2A; Provisional
Probab=25.36 E-value=44 Score=24.27 Aligned_cols=16 Identities=31% Similarity=0.607 Sum_probs=14.0
Q ss_pred CCCCCHHHHHHHHhhC
Q 028625 59 NHQLPLARIKKIMKAD 74 (206)
Q Consensus 59 ~~~LPLARIKKIMKsD 74 (206)
.++||+.||.+.+|..
T Consensus 22 gL~FPVgri~r~Lr~g 37 (58)
T PLN00155 22 GLQFPVGRIARYLKKG 37 (58)
T ss_pred ccccchHHHHHHHhcC
Confidence 5789999999999874
No 44
>COG4915 XpaC 5-bromo-4-chloroindolyl phosphate hydrolysis protein [General function prediction only]
Probab=24.10 E-value=27 Score=30.97 Aligned_cols=48 Identities=17% Similarity=0.398 Sum_probs=36.2
Q ss_pred HHHHHHHHhhCcccchhhh----------------hhhc----cccccHHHHHHHHhcCCcccchhhc
Q 028625 64 LARIKKIMKADEDVRMISA----------------EENK----RRTLQKNDIAAAITRTDIFDFLVDI 111 (206)
Q Consensus 64 LARIKKIMKsDpDV~mISa----------------e~~k----RkTLqy~DIA~AV~~~d~fDFL~DI 111 (206)
+-|+.|+|+-..++.++-+ ++-+ ...-=|+||.++|+=+|+|.||.-.
T Consensus 84 i~~l~K~l~q~kslq~f~q~n~~l~iskriy~~vkq~Pk~fykae~FfyshLdn~veLtekya~L~kq 151 (204)
T COG4915 84 IKRLEKLLKQEKSLQVFEQVNGGLEISKRIYKYVKQEPKRFYKAEEFFYSHLDNMVELTEKYAFLKKQ 151 (204)
T ss_pred HHHHHHHHHhhhHHHHHHHHhhHHHHHHHHHHHHHhCHHHHHHHHHHHHHhhHHHHHHHHHHHHHHhC
Confidence 5678888888888877654 1222 2344599999999999999999865
No 45
>PF08153 NGP1NT: NGP1NT (NUC091) domain; InterPro: IPR012971 This N-terminal domain is found in a subfamily of hypothetical nucleolar GTP-binding proteins similar to human NGP1 [].
Probab=22.90 E-value=73 Score=26.42 Aligned_cols=66 Identities=15% Similarity=0.303 Sum_probs=39.4
Q ss_pred HHHHHHHHHHHHHHHHHhh--cccCCCCCCHHHHHHHHhhCcccchhhh----------hhhccccccHHHHHHHHhc
Q 028625 36 QQQQLQMFWSYQRQEIEQA--NDFKNHQLPLARIKKIMKADEDVRMISA----------EENKRRTLQKNDIAAAITR 101 (206)
Q Consensus 36 ~qq~L~~FW~~q~~eiE~~--~d~k~~~LPLARIKKIMKsDpDV~mISa----------e~~kRkTLqy~DIA~AV~~ 101 (206)
-|..|+.|-...-+.+... --+|...||++=|+-=......+.++.. ...||-.|...||++.+..
T Consensus 45 ~Q~~L~~FReem~~~~~DPy~VlLk~~KLPmsLL~d~~~k~~~~~il~te~F~~tFGpKaqRKRpkL~~~~~eeLa~~ 122 (130)
T PF08153_consen 45 SQEALEKFREEMGEKVKDPYSVLLKRSKLPMSLLQDSGTKQKRVHILETEPFEDTFGPKAQRKRPKLSVSSLEELAKK 122 (130)
T ss_pred CHHHHHHHHHHHHHhhcCCceEeeeCCcCCHHHhcccccccCCcceeecCCHHHHhCCcccccCccccccCHHHHHHH
Confidence 4788999876443223222 2357889999987655223334444443 3567777776666665543
No 46
>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=22.81 E-value=61 Score=23.69 Aligned_cols=18 Identities=33% Similarity=0.562 Sum_probs=13.2
Q ss_pred hhhccccccHHHHHHHHh
Q 028625 83 EENKRRTLQKNDIAAAIT 100 (206)
Q Consensus 83 e~~kRkTLqy~DIA~AV~ 100 (206)
...||++|+-+||..|++
T Consensus 49 ~hskR~~Lt~~Di~~ALr 66 (66)
T PF02969_consen 49 RHSKRTKLTTDDINSALR 66 (66)
T ss_dssp HHTT-SSB-HHHHHHHH-
T ss_pred HHhCCCCCCHHHHHHHhC
Confidence 468999999999999874
No 47
>KOG4811 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.83 E-value=69 Score=26.52 Aligned_cols=39 Identities=36% Similarity=0.546 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHhhcccCCCCCCHHHHHHHHhhCcccchh
Q 028625 39 QLQMFWSYQRQEIEQANDFKNHQLPLARIKKIMKADEDVRMI 80 (206)
Q Consensus 39 ~L~~FW~~q~~eiE~~~d~k~~~LPLARIKKIMKsDpDV~mI 80 (206)
.|.+=|.+.|..|... ++-.=-++|+|+|++.|.|+.|-
T Consensus 4 slrSk~kR~mraikr~---k~epke~~rLkk~l~l~D~~~~~ 42 (127)
T KOG4811|consen 4 SLRSKWKRKMRAIKRK---KNEPKEASRLKKILKLDDDVLMK 42 (127)
T ss_pred hhHHHHHHHHHHHHHh---hcChHHHHHHHHHHccchHHHHH
Confidence 3566777766555443 33333479999999999886653
No 48
>cd07417 MPP_PP5_C PP5, C-terminal metallophosphatase domain. Serine/threonine protein phosphatase-5 (PP5) is a member of the PPP gene family of protein phosphatases that is highly conserved among eukaryotes and widely expressed in mammalian tissues. PP5 has a C-terminal phosphatase domain and an extended N-terminal TPR (tetratricopeptide repeat) domain containing three TPR motifs. The PPP (phosphoprotein phosphatase) family, to which PP5 belongs, is one of two known protein phosphatase families specific for serine and threonine. The PPP family also includes: PP1, PP2A, PP2B (calcineurin), PP4, PP6, PP7, Bsu1, RdgC, PrpE, PrpA/PrpB, and ApA4 hydrolase. The PPP catalytic domain is defined by three conserved motifs (-GDXHG-, -GDXVDRG- and -GNHE-). The PPP enzyme family is ancient with members found in all eukaryotes, and in most bacterial and archeal genomes. Dephosphorylation of phosphoserines and phosphothreonines on target proteins plays a central role in the regulation of many cel
Probab=20.44 E-value=97 Score=28.48 Aligned_cols=52 Identities=21% Similarity=0.266 Sum_probs=34.5
Q ss_pred HHHHHHHhhCcccchhhhhhhccccc------cHHHHHHHHhcC------CcccchhhccCCcc
Q 028625 65 ARIKKIMKADEDVRMISAEENKRRTL------QKNDIAAAITRT------DIFDFLVDIVPRDE 116 (206)
Q Consensus 65 ARIKKIMKsDpDV~mISae~~kRkTL------qy~DIA~AV~~~------d~fDFL~DIVP~~~ 116 (206)
.++++|++..|.|.-++.....|-.+ ++.|+.+.+... +.|=||.|+|.|-.
T Consensus 39 ~~~~~il~~ep~l~~i~~p~~~~~~VvGDIHG~~~dL~~ll~~~g~~~~~~~ylFLGDyVDRG~ 102 (316)
T cd07417 39 LQVKELLKKLPSLVEITIPEGEKITVCGDTHGQFYDLLNIFELNGLPSETNPYLFNGDFVDRGS 102 (316)
T ss_pred HHHHHHHHhCCcceeccCCCCceeEEeecccCCHHHHHHHHHhcCCCCccCeEEEEeeEecCCC
Confidence 44566667777666554332334444 788888887643 36999999998864
Done!