2B2V | pdb_00002b2v

Crystal structure analysis of human CHD1 chromodomains 1 and 2 bound to histone H3 resi 1-15 MeK4

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations
Protein Modification Annotation

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d2b2va1	All beta proteins	SH3-like barrel	Chromo domain-like	Chromo domain	ATP-dependent helicase CHD1 (Chromo domain protein 1)	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d2b2va3	Artifacts	Tags	Tags	Tags	C-terminal Tags	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d2b2vb1	All beta proteins	SH3-like barrel	Chromo domain-like	Chromo domain	ATP-dependent helicase CHD1 (Chromo domain protein 1)	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d2b2vc1	All beta proteins	SH3-like barrel	Chromo domain-like	Chromo domain	ATP-dependent helicase CHD1 (Chromo domain protein 1)	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Chromo domain-like	8037567	3000161	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Chromo domain-like	8037567	3000161	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Chromo domain-like	8037567	3000161	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	e2b2vA1	A: Cloacin translocation domain	X: Cloacin translocation domain	H: Cloacin translocation domain	T: dUTPase	F:	ECOD (20:10:01)
B	e2b2vB1	A: Cloacin translocation domain	X: Cloacin translocation domain	H: Cloacin translocation domain	T: dUTPase	F:	ECOD (20:10:01)
C	e2b2vC1	A: Cloacin translocation domain	X: Cloacin translocation domain	H: Cloacin translocation domain	T: dUTPase	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Provenance Source (Version)
A	2.40.50.40	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	CATH (4.3.0)
B	2.40.50.40	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	CATH (4.3.0)
C	2.40.50.40	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF00385	Chromo (CHRromatin Organisation MOdifier) domain (Chromo)	Chromo (CHRromatin Organisation MOdifier) domain		Domain
C	PF00385	Chromo (CHRromatin Organisation MOdifier) domain (Chromo)	Chromo (CHRromatin Organisation MOdifier) domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Chromodomain-helicase-DNA-binding protein 1	protein binding binding histone binding histone reader activity histone H3 reader activity chromatin-protein adaptor activity histone H3K4me3 reader activity protein-macromolecule adaptor activity molecular adaptor activity chromatin binding ATP-dependent activity, acting on DNA ATP-dependent chromatin remodeler activity catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid protein binding binding histone binding histone reader activity histone H3 reader activity chromatin-protein adaptor activity histone H3K4me3 reader activity protein-macromolecule adaptor activity molecular adaptor activity chromatin binding ATP-dependent activity, acting on DNA ATP-dependent chromatin remodeler activity catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid catalytic activity ATP-dependent activity adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding DNA binding nucleic acid binding pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides	host-mediated activation of viral transcription biological process involved in interspecies interaction between organisms host-mediated perturbation of viral transcription host-mediated perturbation of viral process modulation of process of another organism host-mediated activation of viral process host-mediated perturbation of symbiont process cellular component organization protein-DNA complex organization protein-containing complex organization chromatin organization chromatin remodeling cellular process cellular component organization or biogenesis host-mediated activation of viral transcription biological process involved in interspecies interaction between organisms host-mediated perturbation of viral transcription host-mediated perturbation of viral process modulation of process of another organism host-mediated activation of viral process host-mediated perturbation of symbiont process cellular component organization protein-DNA complex organization protein-containing complex organization chromatin organization chromatin remodeling cellular process cellular component organization or biogenesis nucleosome organization	cellular anatomical structure intracellular anatomical structure cytoplasm membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen membraneless organelle cellular anatomical structure intracellular anatomical structure cytoplasm membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen membraneless organelle intracellular membraneless organelle chromatin chromosome nuclear chromosome
C	Chromodomain-helicase-DNA-binding protein 1	protein binding binding histone binding histone reader activity histone H3 reader activity chromatin-protein adaptor activity histone H3K4me3 reader activity protein-macromolecule adaptor activity molecular adaptor activity chromatin binding ATP-dependent activity, acting on DNA ATP-dependent chromatin remodeler activity catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid protein binding binding histone binding histone reader activity histone H3 reader activity chromatin-protein adaptor activity histone H3K4me3 reader activity protein-macromolecule adaptor activity molecular adaptor activity chromatin binding ATP-dependent activity, acting on DNA ATP-dependent chromatin remodeler activity catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid catalytic activity ATP-dependent activity adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding DNA binding nucleic acid binding pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides	host-mediated activation of viral transcription biological process involved in interspecies interaction between organisms host-mediated perturbation of viral transcription host-mediated perturbation of viral process modulation of process of another organism host-mediated activation of viral process host-mediated perturbation of symbiont process cellular component organization protein-DNA complex organization protein-containing complex organization chromatin organization chromatin remodeling cellular process cellular component organization or biogenesis host-mediated activation of viral transcription biological process involved in interspecies interaction between organisms host-mediated perturbation of viral transcription host-mediated perturbation of viral process modulation of process of another organism host-mediated activation of viral process host-mediated perturbation of symbiont process cellular component organization protein-DNA complex organization protein-containing complex organization chromatin organization chromatin remodeling cellular process cellular component organization or biogenesis nucleosome organization	cellular anatomical structure intracellular anatomical structure cytoplasm membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen membraneless organelle cellular anatomical structure intracellular anatomical structure cytoplasm membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen membraneless organelle intracellular membraneless organelle chromatin chromosome nuclear chromosome
D	Histone H3	DNA binding binding nucleic acid binding cell adhesion molecule binding cadherin binding protein binding protein heterodimerization activity protein dimerization activity structural molecule activity structural constituent of chromatin	protein-containing complex organization protein-DNA complex assembly cellular component organization protein-DNA complex organization cellular component biogenesis cellular component assembly chromatin organization protein-containing complex assembly chromatin remodeling cellular process cellular component organization or biogenesis nucleosome assembly nucleosome organization organelle organization protein-containing complex organization protein-DNA complex assembly cellular component organization protein-DNA complex organization cellular component biogenesis cellular component assembly chromatin organization protein-containing complex assembly chromatin remodeling cellular process cellular component organization or biogenesis nucleosome assembly nucleosome organization organelle organization telomere organization chromosome organization regulation of biosynthetic process regulation of biological process regulation of cellular process epigenetic regulation of gene expression biological regulation regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression biosynthetic process regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process regulation of metabolic process	cellular anatomical structure membrane extracellular region extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle organelle extracellular space vesicle extracellular membrane-bounded organelle protein-containing complex intracellular anatomical structure protein-DNA complex cellular anatomical structure membrane extracellular region extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle organelle extracellular space vesicle extracellular membrane-bounded organelle protein-containing complex intracellular anatomical structure protein-DNA complex nucleosome intracellular membraneless organelle chromatin chromosome intracellular organelle membraneless organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR023780	Chromo domain	Domain
A, B	IPR016197	Chromo-like domain superfamily	Homologous Superfamily
A, B	IPR023779	Chromo domain, conserved site	Conserved Site
A, B	IPR049730	SNF2/RAD5-like, C-terminal helicase domain	Domain
A, B	IPR038718	SNF2-like, N-terminal domain superfamily	Homologous Superfamily
A, B	IPR000330	SNF2, N-terminal domain	Domain
A, B	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, B	IPR000953	Chromo/chromo shadow domain	Domain
A, B	IPR001650	Helicase, C-terminal domain-like	Domain
A, B	IPR014001	Helicase superfamily 1/2, ATP-binding domain	Domain
A, B	IPR056302	ATP-dependent helicase CHD1-2/hrp3, HTH domain	Domain
A, B	IPR025260	Chromodomain-helicase-DNA-binding protein 1-like, C-terminal domain	Domain
A, B	IPR040793	CDH1/2, SANT-Helical linker 1	Domain
C	IPR023780	Chromo domain	Domain
C	IPR016197	Chromo-like domain superfamily	Homologous Superfamily
C	IPR023779	Chromo domain, conserved site	Conserved Site
C	IPR049730	SNF2/RAD5-like, C-terminal helicase domain	Domain
C	IPR038718	SNF2-like, N-terminal domain superfamily	Homologous Superfamily
C	IPR000330	SNF2, N-terminal domain	Domain
C	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
C	IPR000953	Chromo/chromo shadow domain	Domain
C	IPR001650	Helicase, C-terminal domain-like	Domain
C	IPR014001	Helicase superfamily 1/2, ATP-binding domain	Domain
C	IPR056302	ATP-dependent helicase CHD1-2/hrp3, HTH domain	Domain
C	IPR025260	Chromodomain-helicase-DNA-binding protein 1-like, C-terminal domain	Domain
C	IPR040793	CDH1/2, SANT-Helical linker 1	Domain
D	IPR009072	Histone-fold	Homologous Superfamily
D	IPR007125	Core Histone H2A/H2B/H3 domain	Domain
D	IPR000164	Histone H3/CENP-A	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: O14646	prostate cancer Pilarowski-Bjornsson syndrome colorectal cancer adrenal cortex carcinoma Crohn disease interstitial lung disease malignant glioma ovarian cancer colorectal adenoma diabetes mellitus large cell medulloblastoma malignant mesothelioma Prostatic Neoplasms glioblastoma lung cancer prostate cancer Pilarowski-Bjornsson syndrome colorectal cancer adrenal cortex carcinoma Crohn disease interstitial lung disease malignant glioma ovarian cancer colorectal adenoma diabetes mellitus large cell medulloblastoma malignant mesothelioma Prostatic Neoplasms glioblastoma lung cancer medulloblastoma primitive neuroectodermal tumor ulcerative colitis
C	Pharos: O14646	prostate cancer Pilarowski-Bjornsson syndrome colorectal cancer adrenal cortex carcinoma Crohn disease interstitial lung disease malignant glioma ovarian cancer colorectal adenoma diabetes mellitus large cell medulloblastoma malignant mesothelioma Prostatic Neoplasms glioblastoma lung cancer prostate cancer Pilarowski-Bjornsson syndrome colorectal cancer adrenal cortex carcinoma Crohn disease interstitial lung disease malignant glioma ovarian cancer colorectal adenoma diabetes mellitus large cell medulloblastoma malignant mesothelioma Prostatic Neoplasms glioblastoma lung cancer medulloblastoma primitive neuroectodermal tumor ulcerative colitis
D	Pharos: P68431	lung carcinoma glioblastoma glioma large cell medulloblastoma malignant mesothelioma non-small cell lung carcinoma ovarian cancer allergic rhinitis psoriasis autism spectrum disorder tuberculosis cutaneous lupus erythematosus ependymoma gastric carcinoma Glioma of Brain, Familial lung carcinoma glioblastoma glioma large cell medulloblastoma malignant mesothelioma non-small cell lung carcinoma ovarian cancer allergic rhinitis psoriasis autism spectrum disorder tuberculosis cutaneous lupus erythematosus ependymoma gastric carcinoma Glioma of Brain, Familial hypertensive disorder lung adenocarcinoma malignant colon neoplasm malignant pancreatic neoplasm osteoarthritis pancreatic intraductal papillary-mucinous carcinoma astrocytoma (excluding glioblastoma) spina bifida breast cancer cystic fibrosis exocrine pancreatic carcinoma glioma susceptibility 1 invasive ductal breast carcinoma lung cancer malignant glioma medulloblastoma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm atypical teratoid rhabdoid tumor subependymoma breast carcinoma ductal breast carcinoma in situ gastric cancer hepatocellular carcinoma