NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|77539462|ref|NP_001029272|]
View 

uncharacterized protein LOC385328 [Mus musculus]

Protein Classification

histone H2A family protein( domain architecture ID 10049432)

histone H2A family protein similar to histone 2A (H2A) that is a core component of nucleosome

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
HFD_H2A cd00074
histone-fold domain found in histone H2A and similar proteins; Histone H2A is the core ...
 22-95 4.71e-22

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: 82.20  E-value: 4.71e-22
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 77539462  22 PLSLVDRFLREEIHSSRLSSSALPFLTSVLEYLTSNILELAGEVAHTTGRKCVAPEDVHLVVQNNEQLRQLFKS 95
Cdd:cd00074  12 PVGRIHRLLKKGTYAKRVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKKRITPRHIQLAIRNDEELNKLFKG 85
 
Name Accession Description Interval E-value
HFD_H2A cd00074
histone-fold domain found in histone H2A and similar proteins; Histone H2A is the core ...
 22-95 4.71e-22

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: 82.20  E-value: 4.71e-22
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 77539462  22 PLSLVDRFLREEIHSSRLSSSALPFLTSVLEYLTSNILELAGEVAHTTGRKCVAPEDVHLVVQNNEQLRQLFKS 95
Cdd:cd00074  12 PVGRIHRLLKKGTYAKRVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKKRITPRHIQLAIRNDEELNKLFKG 85
H2A smart00414
Histone 2A;
22-97 4.05e-15

Histone 2A;


Pssm-ID: 197711  Cd Length: 106  Bit Score: 65.05  E-value: 4.05e-15
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 77539462     22 PLSLVDRFLREEIHSSRLSSSALPFLTSVLEYLTSNILELAGEVAHTTGRKCVAPEDVHLVVQNNEQLRQLFK-----SG 96
Cdd:smart00414  11 PVGRIHRLLRKGTYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLAIRNDEELNKLLKgvtiaQG 90


                   .
gi 77539462     97 G 97
Cdd:smart00414  91 G 91
HTA1 COG5262
Histone H2A [Chromatin structure and dynamics];
22-97 4.49e-15

Histone H2A [Chromatin structure and dynamics];


Pssm-ID: 227587 [Multi-domain]  Cd Length: 132  Bit Score: 65.65  E-value: 4.49e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 77539462  22 PLSLVDRFLREEIHSSRLSSSALPFLTSVLEYLTSNILELAGEVAHTTGRKCVAPEDVHLVVQNNEQLRQL-----FKSG 96
Cdd:COG5262  28 PVGRVKRLLKKGNYRMRIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIPRHLQLAIRNDEELNKLlgdvtIAQG 107


                .
gi 77539462  97 G 97
Cdd:COG5262 108 G 108
PTZ00017 PTZ00017
histone H2A; Provisional
 20-97 4.59e-12

histone H2A; Provisional


Pssm-ID: 185399  Cd Length: 134  Bit Score: 58.22  E-value: 4.59e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 77539462   20 ELPLSLVDRFLREEIHSSRLSSSALPFLTSVLEYLTSNILELAGEVAHTTGRKCVAPEDVHLVVQNNEQLRQL-----FK 94
Cdd:PTZ00017  27 QFPVGRVHRYLKKGRYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKRITPRHIQLAIRNDEELNKLlagvtIA 106


                 ...
gi 77539462   95 SGG 97
Cdd:PTZ00017 107 SGG 109
CBFD_NFYB_HMF pfam00808
Histone-like transcription factor (CBF/NF-Y) and archaeal histone; This family includes ...
 20-83 3.12e-05

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: 38.74  E-value: 3.12e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 77539462    20 ELPLSLVDRFLREEIHSSRLSSSALPFLTSVLEYLTSNILELAGEVAHTTGRKCVAPEDVHLVV 83
Cdd:pfam00808   2 ELPIARVKRIMKSDPDAGRISQDAKELIAECVEEFIEFVASEAAEICNKAGRKTINPEHIKQAV 65
 
Name Accession Description Interval E-value
HFD_H2A cd00074
histone-fold domain found in histone H2A and similar proteins; Histone H2A is the core ...
 22-95 4.71e-22

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: 82.20  E-value: 4.71e-22
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 77539462  22 PLSLVDRFLREEIHSSRLSSSALPFLTSVLEYLTSNILELAGEVAHTTGRKCVAPEDVHLVVQNNEQLRQLFKS 95
Cdd:cd00074  12 PVGRIHRLLKKGTYAKRVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKKRITPRHIQLAIRNDEELNKLFKG 85
H2A smart00414
Histone 2A;
22-97 4.05e-15

Histone 2A;


Pssm-ID: 197711  Cd Length: 106  Bit Score: 65.05  E-value: 4.05e-15
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 77539462     22 PLSLVDRFLREEIHSSRLSSSALPFLTSVLEYLTSNILELAGEVAHTTGRKCVAPEDVHLVVQNNEQLRQLFK-----SG 96
Cdd:smart00414  11 PVGRIHRLLRKGTYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLAIRNDEELNKLLKgvtiaQG 90


                   .
gi 77539462     97 G 97
Cdd:smart00414  91 G 91
HTA1 COG5262
Histone H2A [Chromatin structure and dynamics];
22-97 4.49e-15

Histone H2A [Chromatin structure and dynamics];


Pssm-ID: 227587 [Multi-domain]  Cd Length: 132  Bit Score: 65.65  E-value: 4.49e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 77539462  22 PLSLVDRFLREEIHSSRLSSSALPFLTSVLEYLTSNILELAGEVAHTTGRKCVAPEDVHLVVQNNEQLRQL-----FKSG 96
Cdd:COG5262  28 PVGRVKRLLKKGNYRMRIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIPRHLQLAIRNDEELNKLlgdvtIAQG 107


                .
gi 77539462  97 G 97
Cdd:COG5262 108 G 108
PTZ00017 PTZ00017
histone H2A; Provisional
 20-97 4.59e-12

histone H2A; Provisional


Pssm-ID: 185399  Cd Length: 134  Bit Score: 58.22  E-value: 4.59e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 77539462   20 ELPLSLVDRFLREEIHSSRLSSSALPFLTSVLEYLTSNILELAGEVAHTTGRKCVAPEDVHLVVQNNEQLRQL-----FK 94
Cdd:PTZ00017  27 QFPVGRVHRYLKKGRYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKRITPRHIQLAIRNDEELNKLlagvtIA 106


                 ...
gi 77539462   95 SGG 97
Cdd:PTZ00017 107 SGG 109
PLN00153 PLN00153
histone H2A; Provisional
 20-101 5.28e-12

histone H2A; Provisional


Pssm-ID: 165721 [Multi-domain]  Cd Length: 129  Bit Score: 57.81  E-value: 5.28e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 77539462   20 ELPLSLVDRFLREEIHSSRLSSSALPFLTSVLEYLTSNILELAGEVAHTTGRKCVAPEDVHLVVQNNEQLRQLF-----K 94
Cdd:PLN00153  24 QFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIVPRHIQLAIRNDEELGKLLgevtiA 103


                 ....*..
gi 77539462   95 SGGTSVN 101
Cdd:PLN00153 104 SGGVLPN 110
PLN00156 PLN00156
histone H2AX; Provisional
 20-95 1.89e-11

histone H2AX; Provisional


Pssm-ID: 215080  Cd Length: 139  Bit Score: 56.51  E-value: 1.89e-11
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 77539462   20 ELPLSLVDRFLREEIHSSRLSSSALPFLTSVLEYLTSNILELAGEVAHTTGRKCVAPEDVHLVVQNNEQLRQLFKS 95
Cdd:PLN00156  29 QFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRNDEELSKLLGS 104
PLN00157 PLN00157
histone H2A; Provisional
 20-92 1.91e-11

histone H2A; Provisional


Pssm-ID: 177758  Cd Length: 132  Bit Score: 56.40  E-value: 1.91e-11
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 77539462   20 ELPLSLVDRFLREEIHSSRLSSSALPFLTSVLEYLTSNILELAGEVAHTTGRKCVAPEDVHLVVQNNEQLRQL 92
Cdd:PLN00157  26 QFPVGRIARYLKAGKYATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSRIVPRHIQLAVRNDEELSKL 98
PLN00154 PLN00154
histone H2A; Provisional
 20-95 3.77e-09

histone H2A; Provisional


Pssm-ID: 177756  Cd Length: 136  Bit Score: 50.71  E-value: 3.77e-09
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 77539462   20 ELPLSLVDRFLREEIHSS-RLSSSALPFLTSVLEYLTSNILELAGEVAHTTGRKCVAPEDVHLVVQNNEQLRQLFKS 95
Cdd:PLN00154  38 QFPVGRIHRQLKQRVSAHgRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLIKG 114
PTZ00252 PTZ00252
histone H2A; Provisional
 21-95 1.94e-07

histone H2A; Provisional


Pssm-ID: 240330  Cd Length: 134  Bit Score: 46.11  E-value: 1.94e-07
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 77539462   21 LPLSLVDRFLREEIHSSRLSSSALPFLTSVLEYLTSNILELAGEVAHTTGRKC--VAPEDVHLVVQNNEQLRQLFKS 95
Cdd:PTZ00252  26 FPVGRVGSLLRRGQYARRIGASGAVYMAAVLEYLTAELLELSVKAAAQQAKKPkrLTPRTVTLAVRHDDDLGSLLKN 102
HFD_SOS1_rpt2 cd22915
second histone-fold domain found in son of sevenless homolog 1 (SOS-1) and similar proteins; ...
 21-93 5.59e-07

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: 43.38  E-value: 5.59e-07
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 77539462  21 LPLSLVDRFLREEIHSSRLSSSALPFLTSVLEYLTSNILELAGEVAHTTGRKCVAPEDVHLVVQNNEQLRQLF 93
Cdd:cd22915   2 FPVDKIHPLLKKDLLVYKVDPQVSLYLVAVLEYIAADILKLAGNYVRNIRHYEITSQDIKVAMCADKVLMDLF 74
HHT1 COG2036
Archaeal histone H3/H4 [Chromatin structure and dynamics];
20-85 1.42e-05

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


Pssm-ID: 441639  Cd Length: 67  Bit Score: 39.81  E-value: 1.42e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 77539462  20 ELPLSLVDRFLREeIHSSRLSSSALPFLTSVLEYLTSNILELAGEVAHTTGRKCVAPEDVHLVVQN 85
Cdd:COG2036   1 ELPVAPVDRIIKK-AGAERVSEDAVEALAEILEEYAEEIAKEAVELAKHAGRKTVKAEDIELAAKL 65
HFD_archaea_histone-like cd22909
histone-fold domain mainly found in archaeal histone-fold proteins, histone-like transcription ...
 20-83 2.09e-05

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: 39.06  E-value: 2.09e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 77539462  20 ELPLSLVDRFLREeIHSSRLSSSALPFLTSVLEYLTSNILELAGEVAHTTGRKCVAPEDVHLVV 83
Cdd:cd22909   1 ELPKAPVKRIIKK-AGAERVSEDAAEELAKLLEEIAEEIAEEAVKLAKHAGRKTVKAEDIELAV 63
CBFD_NFYB_HMF pfam00808
Histone-like transcription factor (CBF/NF-Y) and archaeal histone; This family includes ...
 20-83 3.12e-05

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: 38.74  E-value: 3.12e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 77539462    20 ELPLSLVDRFLREEIHSSRLSSSALPFLTSVLEYLTSNILELAGEVAHTTGRKCVAPEDVHLVV 83
Cdd:pfam00808   2 ELPIARVKRIMKSDPDAGRISQDAKELIAECVEEFIEFVASEAAEICNKAGRKTINPEHIKQAV 65
HFD_SF cd00076
histone fold domain (HFD) superfamily; The histone fold domain (HFD) is a structurally ...
 21-84 3.76e-05

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: 38.35  E-value: 3.76e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 77539462  21 LPLSLVDRFLREeIHSSRLSSSALPFLTSVLEYLTSNILELAGEVAHTTGRKCVAPEDVHLVVQ 84
Cdd:cd00076   1 LLRSAVARILKS-AGFDSVSKSALELLSDLLERYLEELARAAKAYAELAGRTTPNAEDVELALE 63
Histone pfam00125
Core histone H2A/H2B/H3/H4;
28-84 2.65e-04

Core histone H2A/H2B/H3/H4;


Pssm-ID: 459682 [Multi-domain]  Cd Length: 126  Bit Score: 37.41  E-value: 2.65e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 77539462    28 RFLREeIHSS-----RLSSSALPFLTSVLEYLTSNILELAGEVAHTTGRKCVAPEDVHLVVQ 84
Cdd:pfam00125  64 RVVRE-VVQStktdlRISADAVVALQEAVEDFLVELFEEANLLAIHAKRVTLTPKDIQLARR 124
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH