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Conserved domains on  [gi|15221875|ref|NP_175868|]
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gamma histone variant H2AX [Arabidopsis thaliana]

Protein Classification

PLN00156 family protein( domain architecture ID 11476420)

PLN00156 family protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PLN00156 PLN00156
histone H2AX; Provisional
 4-142 1.43e-84

histone H2AX; Provisional


:

Pssm-ID: 215080  Cd Length: 139  Bit Score: 243.72  E-value: 1.43e-84
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221875    4 GAGSGTTKGGRGKPKATKSVSRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKK 83
Cdd:PLN00156   1 GAGSGTTKGGRGKPKATKSVSRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKK 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 15221875   84 TRIVPRHIQLAVRNDEELSKLLGSVTIANGGVLPNIHQTLLPSKVGKNKGDIGSASQEF 142
Cdd:PLN00156  81 NRIVPRHIQLAVRNDEELSKLLGSVTIAAGGVLPNIHQTLLPKKVGKGKGDIGSASQEF 139
 
Name Accession Description Interval E-value
PLN00156 PLN00156
histone H2AX; Provisional
 4-142 1.43e-84

histone H2AX; Provisional


Pssm-ID: 215080  Cd Length: 139  Bit Score: 243.72  E-value: 1.43e-84
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221875    4 GAGSGTTKGGRGKPKATKSVSRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKK 83
Cdd:PLN00156   1 GAGSGTTKGGRGKPKATKSVSRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKK 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 15221875   84 TRIVPRHIQLAVRNDEELSKLLGSVTIANGGVLPNIHQTLLPSKVGKNKGDIGSASQEF 142
Cdd:PLN00156  81 NRIVPRHIQLAVRNDEELSKLLGSVTIAAGGVLPNIHQTLLPKKVGKGKGDIGSASQEF 139
H2A smart00414
Histone 2A;
24-129 3.66e-64

Histone 2A;


Pssm-ID: 197711  Cd Length: 106  Bit Score: 191.01  E-value: 3.66e-64
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221875     24 SRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKTRIVPRHIQLAVRNDEELSK 103
Cdd:smart00414   1 SRSARAGLQFPVGRIHRLLRKGTYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLAIRNDEELNK 80

                           90       100
                   ....*....|....*....|....*.
gi 15221875    104 LLGSVTIANGGVLPNIHQTLLPSKVG 129
Cdd:smart00414  81 LLKGVTIAQGGVLPNIHKVLLPKKTG 106
HFD_H2A cd00074
histone-fold domain found in histone H2A and similar proteins; Histone H2A is the core ...
 23-111 1.43e-56

histone-fold domain found in histone H2A and similar proteins; Histone H2A is the core component of the nucleosome, which wraps and compacts DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling. The nucleosome is a histone octamer containing two molecules each of H2A, H2B, H3 and H4 assembled in one H3-H4 heterotetramer and two H2A-H2B heterodimers. The octamer wraps approximately 147 bp of DNA.


Pssm-ID: 467020  Cd Length: 89  Bit Score: 171.18  E-value: 1.43e-56
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221875  23 VSRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKTRIVPRHIQLAVRNDEELS 102
Cdd:cd00074   1 QSRSKRAGLQFPVGRIHRLLKKGTYAKRVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKKRITPRHIQLAIRNDEELN 80


                ....*....
gi 15221875 103 KLLGSVTIA 111
Cdd:cd00074  81 KLFKGVTIA 89
HTA1 COG5262
Histone H2A [Chromatin structure and dynamics];
11-141 1.80e-51

Histone H2A [Chromatin structure and dynamics];


Pssm-ID: 227587 [Multi-domain]  Cd Length: 132  Bit Score: 159.64  E-value: 1.80e-51
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221875  11 KGGRGKPKATKSV-SRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKTRIVPR 89
Cdd:COG5262   4 GGKGGKAADARVSqSRSAKAGLIFPVGRVKRLLKKGNYRMRIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIPR 83

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|..
gi 15221875  90 HIQLAVRNDEELSKLLGSVTIANGGVLPNIHQTLLPSKVGKNkgdiGSASQE 141
Cdd:COG5262  84 HLQLAIRNDEELNKLLGDVTIAQGGVLPNINPGLLPKSSKKG----SKRSQE 131
Histone_H2A_C pfam16211
C-terminus of histone H2A;
99-133 9.79e-16

C-terminus of histone H2A;


Pssm-ID: 465070  Cd Length: 35  Bit Score: 66.02  E-value: 9.79e-16
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 15221875    99 EELSKLLGSVTIANGGVLPNIHQTLLPSKVGKNKG 133
Cdd:pfam16211   1 EELNKLLRGVTIAQGGVLPNIHKVLLPKKTKKKKK 35
 
Name Accession Description Interval E-value
PLN00156 PLN00156
histone H2AX; Provisional
 4-142 1.43e-84

histone H2AX; Provisional


Pssm-ID: 215080  Cd Length: 139  Bit Score: 243.72  E-value: 1.43e-84
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221875    4 GAGSGTTKGGRGKPKATKSVSRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKK 83
Cdd:PLN00156   1 GAGSGTTKGGRGKPKATKSVSRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKK 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 15221875   84 TRIVPRHIQLAVRNDEELSKLLGSVTIANGGVLPNIHQTLLPSKVGKNKGDIGSASQEF 142
Cdd:PLN00156  81 NRIVPRHIQLAVRNDEELSKLLGSVTIAAGGVLPNIHQTLLPKKVGKGKGDIGSASQEF 139
PTZ00017 PTZ00017
histone H2A; Provisional
 6-133 1.50e-71

histone H2A; Provisional


Pssm-ID: 185399  Cd Length: 134  Bit Score: 210.76  E-value: 1.50e-71
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221875    6 GSGTTKGGRGKPKATKSVSRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKTR 85
Cdd:PTZ00017   1 KGGKGKTGGGKAGKKKPVSRSAKAGLQFPVGRVHRYLKKGRYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKR 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*...
gi 15221875   86 IVPRHIQLAVRNDEELSKLLGSVTIANGGVLPNIHQTLLPSKVGKNKG 133
Cdd:PTZ00017  81 ITPRHIQLAIRNDEELNKLLAGVTIASGGVLPNIHKVLLPKKSKPKQG 128
PLN00157 PLN00157
histone H2A; Provisional
 5-133 6.42e-70

histone H2A; Provisional


Pssm-ID: 177758  Cd Length: 132  Bit Score: 206.63  E-value: 6.42e-70
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221875    5 AGSGTTKGGRGKPKATksvSRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKT 84
Cdd:PLN00157   2 SGRGKRKGGGGGKKAT---SRSAKAGLQFPVGRIARYLKAGKYATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKS 78

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 15221875   85 RIVPRHIQLAVRNDEELSKLLGSVTIANGGVLPNIHQTLLPSKVGKNKG 133
Cdd:PLN00157  79 RIVPRHIQLAVRNDEELSKLLGGVTIAAGGVLPNIHSVLLPKKSGKSKG 127
H2A smart00414
Histone 2A;
24-129 3.66e-64

Histone 2A;


Pssm-ID: 197711  Cd Length: 106  Bit Score: 191.01  E-value: 3.66e-64
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221875     24 SRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKTRIVPRHIQLAVRNDEELSK 103
Cdd:smart00414   1 SRSARAGLQFPVGRIHRLLRKGTYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLAIRNDEELNK 80

                           90       100
                   ....*....|....*....|....*.
gi 15221875    104 LLGSVTIANGGVLPNIHQTLLPSKVG 129
Cdd:smart00414  81 LLKGVTIAQGGVLPNIHKVLLPKKTG 106
HFD_H2A cd00074
histone-fold domain found in histone H2A and similar proteins; Histone H2A is the core ...
 23-111 1.43e-56

histone-fold domain found in histone H2A and similar proteins; Histone H2A is the core component of the nucleosome, which wraps and compacts DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling. The nucleosome is a histone octamer containing two molecules each of H2A, H2B, H3 and H4 assembled in one H3-H4 heterotetramer and two H2A-H2B heterodimers. The octamer wraps approximately 147 bp of DNA.


Pssm-ID: 467020  Cd Length: 89  Bit Score: 171.18  E-value: 1.43e-56
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221875  23 VSRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKTRIVPRHIQLAVRNDEELS 102
Cdd:cd00074   1 QSRSKRAGLQFPVGRIHRLLKKGTYAKRVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKKRITPRHIQLAIRNDEELN 80


                ....*....
gi 15221875 103 KLLGSVTIA 111
Cdd:cd00074  81 KLFKGVTIA 89
PLN00153 PLN00153
histone H2A; Provisional
 13-133 1.08e-55

histone H2A; Provisional


Pssm-ID: 165721 [Multi-domain]  Cd Length: 129  Bit Score: 170.28  E-value: 1.08e-55
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221875   13 GRGKPKATKSVSRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKTRIVPRHIQ 92
Cdd:PLN00153   5 GKGKTSGKKAVSRSAKAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIVPRHIQ 84

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 15221875   93 LAVRNDEELSKLLGSVTIANGGVLPNIHQTLLPSKVGKNKG 133
Cdd:PLN00153  85 LAIRNDEELGKLLGEVTIASGGVLPNIHAVLLPKKTKGGKG 125
HTA1 COG5262
Histone H2A [Chromatin structure and dynamics];
11-141 1.80e-51

Histone H2A [Chromatin structure and dynamics];


Pssm-ID: 227587 [Multi-domain]  Cd Length: 132  Bit Score: 159.64  E-value: 1.80e-51
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221875  11 KGGRGKPKATKSV-SRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKTRIVPR 89
Cdd:COG5262   4 GGKGGKAADARVSqSRSAKAGLIFPVGRVKRLLKKGNYRMRIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIPR 83

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|..
gi 15221875  90 HIQLAVRNDEELSKLLGSVTIANGGVLPNIHQTLLPSKVGKNkgdiGSASQE 141
Cdd:COG5262  84 HLQLAIRNDEELNKLLGDVTIAQGGVLPNINPGLLPKSSKKG----SKRSQE 131
PLN00154 PLN00154
histone H2A; Provisional
 4-130 1.78e-38

histone H2A; Provisional


Pssm-ID: 177756  Cd Length: 136  Bit Score: 126.98  E-value: 1.78e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221875    4 GAGSGTTKGGRGKPKATK-SVSRSSKAGLQFPVGRIARFLKAGKYAE-RVGAGAPVYLSAVLEYLAAEVLELAGNAARDN 81
Cdd:PLN00154   9 LLAAKTTAAAAKKDKDKKkPTSRSSRAGLQFPVGRIHRQLKQRVSAHgRVGATAAVYTAAILEYLTAEVLELAGNASKDL 88

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 15221875   82 KKTRIVPRHIQLAVRNDEELSKLLGSvTIANGGVLPNIHQTLLPSKVGK 130
Cdd:PLN00154  89 KVKRITPRHLQLAIRGDEELDTLIKG-TIAGGGVIPHIHKSLINKSTKK 136
PTZ00252 PTZ00252
histone H2A; Provisional
 16-133 1.76e-30

histone H2A; Provisional


Pssm-ID: 240330  Cd Length: 134  Bit Score: 106.59  E-value: 1.76e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221875   16 KPKATKSVS-RSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDN--KKTRIVPRHIQ 92
Cdd:PTZ00252   8 KKKASKSGSgRSAKAGLIFPVGRVGSLLRRGQYARRIGASGAVYMAAVLEYLTAELLELSVKAAAQQakKPKRLTPRTVT 87

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 15221875   93 LAVRNDEELSKLLGSVTIANGGVLPNIHQTLLPSKVGKNKG 133
Cdd:PTZ00252  88 LAVRHDDDLGSLLKNVTLSRGGVMPSLNKALAKKHKSGKKA 128
PLN00155 PLN00155
histone H2A; Provisional
 13-66 1.95e-21

histone H2A; Provisional


Pssm-ID: 165723  Cd Length: 58  Bit Score: 81.29  E-value: 1.95e-21
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 15221875   13 GRGKPKATKSVSRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYL 66
Cdd:PLN00155   5 GKGKTSGKKAVSRSAKAGLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYL 58
HFD_SOS1_rpt2 cd22915
second histone-fold domain found in son of sevenless homolog 1 (SOS-1) and similar proteins; ...
 33-106 8.17e-16

second histone-fold domain found in son of sevenless homolog 1 (SOS-1) and similar proteins; SOS-1 is a guanine nucleotide exchange factor for Ras that binds to GRB2. It promotes the exchange of Ras-bound GDP by GTP. It is a catalytic component of a trimeric complex that participates in transduction of signals from Ras to Rac, by promoting the Rac-specific guanine nucleotide exchange factor (GEF) activity. SOS-1 contains tandem histone folds at the N-terminal region. The model corresponds to the second repeat.


Pssm-ID: 467040  Cd Length: 75  Bit Score: 67.26  E-value: 8.17e-16
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 15221875  33 FPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKTRIVPRHIQLAVRNDEELSKLLG 106
Cdd:cd22915   2 FPVDKIHPLLKKDLLVYKVDPQVSLYLVAVLEYIAADILKLAGNYVRNIRHYEITSQDIKVAMCADKVLMDLFG 75
Histone_H2A_C pfam16211
C-terminus of histone H2A;
99-133 9.79e-16

C-terminus of histone H2A;


Pssm-ID: 465070  Cd Length: 35  Bit Score: 66.02  E-value: 9.79e-16
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 15221875    99 EELSKLLGSVTIANGGVLPNIHQTLLPSKVGKNKG 133
Cdd:pfam16211   1 EELNKLLRGVTIAQGGVLPNIHKVLLPKKTKKKKK 35
Histone pfam00125
Core histone H2A/H2B/H3/H4;
11-96 1.01e-13

Core histone H2A/H2B/H3/H4;


Pssm-ID: 459682 [Multi-domain]  Cd Length: 126  Bit Score: 63.22  E-value: 1.01e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221875    11 KGGRGKPKATKSVSRSSKAGLQFPVGRIARFL-KAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKTRIVPR 89
Cdd:pfam00125  38 PGTVALKEIRKYQSSTDLLIYKLPFARVVREVvQSTKTDLRISADAVVALQEAVEDFLVELFEEANLLAIHAKRVTLTPK 117


                  ....*..
gi 15221875    90 HIQLAVR 96
Cdd:pfam00125 118 DIQLARR 124
HFD_ABTB2-like cd22913
histone-fold domain found in ankyrin repeat and BTB/POZ domain-containing protein 2 (ABTB2) ...
 23-105 3.55e-12

histone-fold domain found in ankyrin repeat and BTB/POZ domain-containing protein 2 (ABTB2) and similar proteins; ABTB2, also called Bood POZ containing gene type 2 (BPOZ-2), is a scaffold protein that controls the degradation of many biological proteins ranging from embryonic development to tumor progression. It may be involved in the initiation of hepatocyte growth. It inhibits the aggregation of alpha-synuclein, which has implications for Parkinson's disease. ABTB2 functions as an adaptor protein for the E3 ubiquitin ligase scaffold protein Cullin-3. It directly binds to eukaryotic elongation factor 1A1 (eEF1A1) to promote eEF1A1 ubiquitylation and degradation and prevent translation. It is also involved in the growth suppressive effect of the phosphatase and tensin homolog (PTEN). This subfamily also includes BTB/POZ domain-containing protein 11 (BTBD11), also called ankyrin repeat and BTB/POZ domain-containing protein BTBD11. It is a BTB-domain-containing Kelch-like protein with unknown function.


Pssm-ID: 467038  Cd Length: 105  Bit Score: 58.85  E-value: 3.55e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221875  23 VSRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKTRIVPRHIQLAVRNDEELS 102
Cdd:cd22913   9 RSKSARCGLTFSVGRFHRWMVDSRLAKRIHEHAAVYLTACMENLLEEIFLRALASLVPKGELELTVEALEYGINNDAELW 88


                ...
gi 15221875 103 KLL 105
Cdd:cd22913  89 GLL 91
BUR6 COG5247
Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription];
32-113 8.59e-08

Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription];


Pssm-ID: 227572  Cd Length: 113  Bit Score: 47.65  E-value: 8.59e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15221875  32 QFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKTRIVPRHIQLAVRNDEELSKLLGSVTIA 111
Cdd:COG5247  23 RFPIARLKKIMQLDEDIGKVGQSTPVIASKALEMFLTEIVGLSLKEARKKSSKRMTSEFLKRATESDEKFDFLKNMEQFK 102


                ..
gi 15221875 112 NG 113
Cdd:COG5247 103 NR 104
HFD_DRAP1 cd22906
histone-fold domain found in Dr1-associated protein 1 (DRAP1) and similar proteins; DRAP1, ...
 33-104 2.90e-06

histone-fold domain found in Dr1-associated protein 1 (DRAP1) and similar proteins; DRAP1, also called Dr1-associated corepressor or negative cofactor 2-alpha (NC2-alpha), acts as a corepressor for Dr1 (down-regulator of transcription 1)-mediated repression of transcription. It forms a heterodimer with Dr1. The association of the Dr1/DRAP1 heterodimer with TBP results in a functional repression of both activated and basal transcription of class II genes. DRAP1 can bind to DNA on its own. It also binds TATA-binding protein-associated factor 172 (BTAF1).


Pssm-ID: 467031 [Multi-domain]  Cd Length: 75  Bit Score: 42.51  E-value: 2.90e-06
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 15221875  33 FPVGRIARFLKA----GKyaerVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKTRIVPRHIQLAVRNDEELSKL 104
Cdd:cd22906   4 FPAARIKKIMQSdeevGK----VAAAVPVLISKALELFLEDLLTKAAEVAKERNAKTITPSHLKQCVESEEKFDFL 75
HHT1 COG2036
Archaeal histone H3/H4 [Chromatin structure and dynamics];
34-97 1.26e-05

Archaeal histone H3/H4 [Chromatin structure and dynamics];


Pssm-ID: 441639  Cd Length: 67  Bit Score: 40.59  E-value: 1.26e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 15221875  34 PVGRIARflKAGkyAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKTRIVPRHIQLAVRN 97
Cdd:COG2036   6 PVDRIIK--KAG--AERVSEDAVEALAEILEEYAEEIAKEAVELAKHAGRKTVKAEDIELAAKL 65
HFD_archaea_histone-like cd22909
histone-fold domain mainly found in archaeal histone-fold proteins, histone-like transcription ...
 34-96 1.88e-04

histone-fold domain mainly found in archaeal histone-fold proteins, histone-like transcription regulators and similar proteins; The family includes many archaeal histone-fold proteins and histone-like transcription regulators, which may bind and compact DNA (95 to 150 base pairs) to form nucleosome-like structures that contain positive DNA supercoils. They can increase the resistance of DNA to thermal denaturation.


Pssm-ID: 467034  Cd Length: 64  Bit Score: 37.52  E-value: 1.88e-04
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 15221875  34 PVGRIARflKAGkyAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKTRIVPRHIQLAVR 96
Cdd:cd22909   6 PVKRIIK--KAG--AERVSEDAAEELAKLLEEIAEEIAEEAVKLAKHAGRKTVKAEDIELAVK 64
CBFD_NFYB_HMF pfam00808
Histone-like transcription factor (CBF/NF-Y) and archaeal histone; This family includes ...
 33-95 3.65e-04

Histone-like transcription factor (CBF/NF-Y) and archaeal histone; This family includes archaebacterial histones and histone like transcription factors from eukaryotes.


Pssm-ID: 395650  Cd Length: 65  Bit Score: 36.82  E-value: 3.65e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 15221875    33 FPVGRIARFLKAGKYAERVGAGAPVYLSAVLE----YLAAEVLELAGnaaRDNKKTrIVPRHIQLAV 95
Cdd:pfam00808   3 LPIARVKRIMKSDPDAGRISQDAKELIAECVEefieFVASEAAEICN---KAGRKT-INPEHIKQAV 65
HFD_Dpb3-like cd23645
histone-fold domain found in Schizosaccharomyces pombe DNA polymerase epsilon subunit C (Dpb3) ...
 31-101 5.73e-04

histone-fold domain found in Schizosaccharomyces pombe DNA polymerase epsilon subunit C (Dpb3) and similar proteins; Schizosaccharomyces pombe Dpb3 is an accessory component of the DNA polymerase epsilon (DNA polymerase II) that is a heterotetramer consisting of cdc20/Pol2, Dpb2, Dpb3, and Dpb4, and participates in chromosomal DNA replication. Dpb3 is required during synthesis of the leading and lagging DNA strands at the replication fork and binds at/or near replication origins and moves along DNA with the replication fork. It has 3'-5' proofreading exonuclease activity that correct errors arising during DNA replication. It is also involved in DNA synthesis during DNA repair. The Dpb3-Dpb4 dimer associates with histone deacetylases, chromatin remodelers, and histones and plays a crucial role in the inheritance of histone hypoacetylation and H3K9 methylation in heterochromatin. The Dpb3-Dpb4 dimer is also required for the recruitment of sir2 to heterochromatin.


Pssm-ID: 467059 [Multi-domain]  Cd Length: 78  Bit Score: 36.44  E-value: 5.73e-04
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 15221875  31 LQFPVGRIARFLKAGKYAERVGAGApVYLSAV-----LEYLAAEVLElagNAARDNKKTrIVPRHIQLAVRNDEEL 101
Cdd:cd23645   1 TVLPLARVKRIIKADKDVKICSKDA-VFLISKatelfIEYLAEQAYE---LAKLEKRKT-VQYKDLAKAVKRDDNL 71
HFD_SF cd00076
histone fold domain (HFD) superfamily; The histone fold domain (HFD) is a structurally ...
 33-96 1.07e-03

histone fold domain (HFD) superfamily; The histone fold domain (HFD) is a structurally conserved interaction motif involved in heterodimerization of the core histones and their assembly into the nucleosome octamer. Histone fold heterodimers play crucial roles in gene regulation. The minimal HFD consists of three alpha helices connected by two short, unstructured loops. The HFD is found in core histones, TATA box-binding protein-associated factors (TAFs), and many other transcription factors. HFD plays a role in the nucleosomal core particle by conserving histone interactions; these contain more than one HFD. The structure of the nucleosome core particle has two modes that have the largest interaction surfaces, and these are the H3-H4 and H2A-H2B heterodimer interactions. Several TAFs interact via histone-fold (HF) motifs. Five HF-containing TAF pairs have been described in transcription factor II D (TFIID): TAF6-TAF9, TAF4-TAF12, TAF11-TAF13, TAF8-TAF10 and TAF3-TAF10.


Pssm-ID: 467021  Cd Length: 63  Bit Score: 35.27  E-value: 1.07e-03
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 15221875  33 FPVGRIARFLKAGKYaERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKTRIVPRHIQLAVR 96
Cdd:cd00076   1 LLRSAVARILKSAGF-DSVSKSALELLSDLLERYLEELARAAKAYAELAGRTTPNAEDVELALE 63
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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