7RJL

Crystal structure of human Bromodomain containing protein 3 (BRD3) in complex with SHMT

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations
Protein Modification Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Bromodomain	e7rjlA1	A: alpha bundles	X: Bromodomain-like	H: Bromodomain (From Topology)	T: Bromodomain	F: Bromodomain	ECOD (1.6)
B	Bromodomain	e7rjlB1	A: alpha bundles	X: Bromodomain-like	H: Bromodomain (From Topology)	T: Bromodomain	F: Bromodomain	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF00439	Bromodomain (Bromodomain)	Bromodomain	Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine [3].	Domain
C, D	PF00464	Serine hydroxymethyltransferase (SHMT)	Serine hydroxymethyltransferase	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Bromodomain-containing protein 3	protein binding binding modification-dependent protein binding lysine-acetylated histone binding histone binding acetylation-dependent protein binding RNA binding organic cyclic compound binding lncRNA binding nucleic acid binding protein-containing complex binding chromatin binding molecular condensate scaffold activity protein-macromolecule adaptor activity protein binding binding modification-dependent protein binding lysine-acetylated histone binding histone binding acetylation-dependent protein binding RNA binding organic cyclic compound binding lncRNA binding nucleic acid binding protein-containing complex binding chromatin binding molecular condensate scaffold activity protein-macromolecule adaptor activity molecular adaptor activity	developmental process multicellular organismal process formation of primary germ layer cellular developmental process embryonic morphogenesis tissue development embryo development gastrulation anatomical structure morphogenesis multicellular organism development endoderm development cell differentiation anatomical structure development anatomical structure formation involved in morphogenesis developmental process multicellular organismal process formation of primary germ layer cellular developmental process embryonic morphogenesis tissue development embryo development gastrulation anatomical structure morphogenesis multicellular organism development endoderm development cell differentiation anatomical structure development anatomical structure formation involved in morphogenesis cellular process endoderm formation endodermal cell differentiation protein localization localization protein localization to chromatin cellular localization protein localization to chromosome protein localization to organelle cellular macromolecule localization macromolecule localization regulation of cellular process cellular biosynthetic process RNA metabolic process regulation of primary metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process transcription by RNA polymerase II organic substance metabolic process organic substance biosynthetic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II regulation of biosynthetic process regulation of biological process cellular metabolic process biological regulation primary metabolic process regulation of cellular metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of cellular biosynthetic process organic cyclic compound metabolic process regulation of gene expression biosynthetic process organic cyclic compound biosynthetic process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process protein-DNA complex organization cellular component organization protein-containing complex organization chromatin organization cellular component organization or biogenesis	membrane-bounded organelle intracellular organelle intracellular anatomical structure organelle nucleus intracellular membrane-bounded organelle cellular anatomical entity
C, D	Serine hydroxymethyltransferase, cytosolic	vitamin binding vitamin B6 binding pyridoxal phosphate binding ion binding binding organic cyclic compound binding anion binding heterocyclic compound binding small molecule binding cation binding organic acid binding serine binding amino acid binding carboxylic acid binding vitamin binding vitamin B6 binding pyridoxal phosphate binding ion binding binding organic cyclic compound binding anion binding heterocyclic compound binding small molecule binding cation binding organic acid binding serine binding amino acid binding carboxylic acid binding translation regulator activity mRNA regulatory element binding translation repressor activity translation regulator activity, nucleic acid binding nucleic acid binding translation repressor activity identical protein binding protein binding protein homodimerization activity protein dimerization activity transferase activity, transferring one-carbon groups glycine hydroxymethyltransferase activity transferase activity hydroxymethyl-, formyl- and related transferase activity catalytic activity RNA binding mRNA 5'-UTR binding mRNA binding transition metal ion binding zinc ion binding metal ion binding	regulation of cellular process cellular biosynthetic process organonitrogen compound biosynthetic process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process post-transcriptional regulation of gene expression negative regulation of translation organic substance metabolic process organic substance biosynthetic process negative regulation of cellular process protein metabolic process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process regulation of cellular process cellular biosynthetic process organonitrogen compound biosynthetic process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process post-transcriptional regulation of gene expression negative regulation of translation organic substance metabolic process organic substance biosynthetic process negative regulation of cellular process protein metabolic process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process organonitrogen compound metabolic process cellular metabolic process regulation of protein metabolic process negative regulation of metabolic process biological regulation regulation of cellular metabolic process primary metabolic process regulation of macromolecule metabolic process gene expression translation macromolecule biosynthetic process negative regulation of cellular biosynthetic process regulation of cellular biosynthetic process regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process regulation of translation negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process metabolic process cellular process macromolecule metabolic process regulation of metabolic process pyrimidine deoxyribonucleotide metabolic process nucleotide biosynthetic process carbohydrate derivative metabolic process pyrimidine nucleotide metabolic process nucleobase-containing compound metabolic process deoxyribonucleotide biosynthetic process pyrimidine deoxyribonucleotide biosynthetic process dTMP metabolic process phosphate-containing compound metabolic process dTMP biosynthetic process small molecule metabolic process phosphorus metabolic process nucleoside phosphate metabolic process pyrimidine-containing compound metabolic process 2'-deoxyribonucleotide biosynthetic process nucleotide metabolic process deoxyribonucleoside monophosphate metabolic process organic cyclic compound metabolic process organophosphate biosynthetic process organic cyclic compound biosynthetic process nucleoside phosphate biosynthetic process pyrimidine nucleoside monophosphate biosynthetic process deoxyribose phosphate biosynthetic process pyrimidine deoxyribonucleoside monophosphate metabolic process deoxyribonucleotide metabolic process nucleobase-containing small molecule metabolic process deoxyribonucleoside monophosphate biosynthetic process pyrimidine deoxyribonucleoside monophosphate biosynthetic process pyrimidine-containing compound biosynthetic process nucleoside monophosphate metabolic process carbohydrate derivative biosynthetic process pyrimidine nucleoside monophosphate metabolic process 2'-deoxyribonucleotide metabolic process deoxyribose phosphate metabolic process nucleobase-containing compound biosynthetic process nucleoside monophosphate biosynthetic process organophosphate metabolic process pyrimidine nucleotide biosynthetic process protein-containing complex organization protein homotetramerization cellular component organization cellular component biogenesis cellular component assembly protein complex oligomerization protein tetramerization protein-containing complex assembly protein homooligomerization cellular component organization or biogenesis nucleobase biosynthetic process purine nucleobase metabolic process purine nucleobase biosynthetic process purine-containing compound metabolic process purine-containing compound biosynthetic process nucleobase metabolic process cellular modified amino acid metabolic process folic acid-containing compound metabolic process tetrahydrofolate interconversion tetrahydrofolate metabolic process pteridine-containing compound metabolic process one-carbon metabolic process catabolic process serine family amino acid metabolic process oxoacid metabolic process amino acid metabolic process organic acid metabolic process organic acid catabolic process L-serine catabolic process alpha-amino acid metabolic process cellular catabolic process carboxylic acid catabolic process amino acid catabolic process organonitrogen compound catabolic process carboxylic acid metabolic process L-amino acid catabolic process L-serine metabolic process L-amino acid metabolic process proteinogenic amino acid metabolic process serine family amino acid catabolic process alpha-amino acid catabolic process proteinogenic amino acid catabolic process small molecule catabolic process organic substance catabolic process glycine metabolic process dicarboxylic acid metabolic process vitamin metabolic process amide metabolic process water-soluble vitamin metabolic process folic acid metabolic process cellular response to stimulus response to organic substance response to stimulus response to cytokine response to leukemia inhibitory factor cellular response to leukemia inhibitory factor cellular response to chemical stimulus response to chemical cellular response to cytokine stimulus cellular response to organic substance organic acid biosynthetic process carboxylic acid biosynthetic process glycine biosynthetic process glycine biosynthetic process from serine small molecule biosynthetic process L-amino acid biosynthetic process amino acid biosynthetic process proteinogenic amino acid biosynthetic process serine family amino acid biosynthetic process alpha-amino acid biosynthetic process cellular response to nitrogen compound response to tetrahydrofolate response to endogenous stimulus response to organonitrogen compound cellular response to organic cyclic compound cellular response to tetrahydrofolate response to oxygen-containing compound response to nitrogen compound cellular response to oxygen-containing compound cellular response to endogenous stimulus cellular response to organonitrogen compound response to organic cyclic compound	extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space cellular anatomical entity vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cytosol nucleus extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space cellular anatomical entity vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cytosol nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR043508	Brdt, bromodomain, repeat I	Domain
A, B	IPR027353	NET domain	Domain
A, B	IPR043509	Brdt, bromodomain, repeat II	Domain
A, B	IPR018359	Bromodomain, conserved site	Conserved Site
A, B	IPR001487	Bromodomain	Domain
A, B	IPR036427	Bromodomain-like superfamily	Homologous Superfamily
A, B	IPR038336	NET domain superfamily	Homologous Superfamily
C, D	IPR019798	Serine hydroxymethyltransferase, pyridoxal phosphate binding site	Binding Site
C, D	IPR015421	Pyridoxal phosphate-dependent transferase, major domain	Homologous Superfamily
C, D	IPR015422	Pyridoxal phosphate-dependent transferase, small domain	Homologous Superfamily
C, D	IPR039429	Serine hydroxymethyltransferase-like domain	Domain
C, D	IPR001085	Serine hydroxymethyltransferase	Family
C, D	IPR015424	Pyridoxal phosphate-dependent transferase	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: Q15059	medulloblastoma adult medulloblastoma medullomyoblastoma with myogenic differentiation childhood medulloblastoma melanotic medulloblastoma Conventional (Clear Cell) Renal Cell Carcinoma osteosarcoma subependymal giant cell astrocytoma astrocytic tumor desmoplastic/nodular medulloblastoma ovarian cancer gastric adenocarcinoma pancreatic ductal adenocarcinoma
C, D	Pharos: P34896	nervous system disorder breast carcinoma Lymphoma, Small Noncleaved-Cell nephrosclerosis pancreatic ductal adenocarcinoma reticulum cell sarcoma atypical teratoid rhabdoid tumor psoriasis schizophrenia breast cancer ductal breast carcinoma in situ invasive ductal breast carcinoma lung adenocarcinoma lymphosarcoma non-Hodgkin lymphoma nervous system disorder breast carcinoma Lymphoma, Small Noncleaved-Cell nephrosclerosis pancreatic ductal adenocarcinoma reticulum cell sarcoma atypical teratoid rhabdoid tumor psoriasis schizophrenia breast cancer ductal breast carcinoma in situ invasive ductal breast carcinoma lung adenocarcinoma lymphosarcoma non-Hodgkin lymphoma attention deficit hyperactivity disorder, inattentive type esophageal adenocarcinoma large cell medulloblastoma

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
C, D	ALY	Parent Component: LYS RESID: AA0055 PSI-MOD : N6-acetyl-L-lysine MOD:00064

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.